|
|-
|Eksekutif
|-
! colspan="5" align="center" |Kereta api pendukung (kelas campuran)
|-
| rowspan="2" |{{kereta api|Brantas}}
|Eksekutif
| rowspan="2" |{{sta|Pasar Senen}}
| rowspan="2" |{{sta|Blitar}}
| rowspan="2" | Via {{sta|Semarang Tawang}}–{{Sta|Solo Jebres}}
|-
|Ekonomi
|-
! colspan="5" align="center" |Kereta api pendukung (kelas campuran)
|{{kereta api|Matarmaja}}
|}
{| class="wikitable"
|+Lintas tengah Jawa
!Nama kereta api
!Kelas
! colspan="2" |Relasi perjalanan
!Keterangan
|-
! colspan="5" align="center" |Kereta api utama
|-
| rowspan="2" |{{kereta api|Argo Semeru}}
|''Compartment Suite''
| rowspan="4" |{{sta|Gambir}}
| rowspan="4" |{{sta|Surabaya Gubeng}}
| rowspan="4" |Via {{sta|Purwokerto}}–{{sta|Yogyakarta}}
|-
|Eksekutif
|-
| rowspan="2" |{{kereta api|Bima}}
|''Compartment Suite''
|-
|Eksekutif
|-
! colspan="5" |Kereta api pendukung (kelas campuran)
|-
| rowspan="2" |{{KA|Bangunkarta}}
|Eksekutif
| rowspan="2" |'''Jombang'''
| rowspan="2" |{{sta|Pasar Senen}}
| rowspan="2" |Via {{sta|Yogyakarta}}–{{sta|Purwokerto}}
|-
|Ekonomi
|-
| rowspan="2" |{{kereta api|Logawa}}
|Bisnis
| rowspan="2" |{{sta|Purwokerto}}
| rowspan="4" |{{sta|Jember}}
| rowspan="2" |Via {{sta|Lempuyangan}}–{{sta|Surabaya Gubeng}}
|-
|Ekonomi
|-
| rowspan="2" |{{kereta api|Ranggajati}}
|Eksekutif
| rowspan="2" |{{sta|Cirebon}}
| rowspan="2" |Via {{sta|Purwokerto}}–{{sta|Surabaya Gubeng}}
|-
|Bisnis
|-
| rowspan="2" |{{kereta api|Gaya Baru Malam Selatan}}
|Eksekutif
| rowspan="2" | {{sta|Pasar Senen}}
| rowspan="2" | {{sta|Surabaya Gubeng}}
| rowspan="2" | Via {{sta|Purwokerto}}–{{sta|Lempuyangan}}
|-
|Ekonomi
|-
! colspan="5" |Kereta api pendukung (kelas ekonomi)
|-
|{{kereta api|Jayakarta}}
|Ekonomi Premium
|{{sta|Pasar Senen}}
|{{sta|Surabaya Gubeng}}
|Via {{sta|Purwokerto}}–{{sta|Lempuyangan}}
|}
{| class="wikitable"
|+Lintas selatan Jawa
!Nama kereta api
!Kelas
! colspan="2" |Relasi perjalanan
!Keterangan
|-
! colspan="5" align="center" |Kereta api utama
|-
| rowspan="2" |{{kereta api|Sancaka}}
|Eksekutif
| rowspan="2" |{{sta|Yogyakarta}}
| rowspan="8" |{{sta|Surabaya Gubeng}}
| rowspan="2" |Jadwal malam hanya beroperasi pada hari Jumat–Minggu dan hari libur nasional
|-
|Ekonomi Premium
|-
| rowspan="2" |{{kereta api|Argo Wilis}}
|[[Kereta wisata komersial di Indonesia|''Panoramic'']]
| rowspan="6" |{{sta|Bandung}}
| rowspan="6" |Via {{sta|Tasikmalaya}}–{{sta|Yogyakarta}}
|-
|Eksekutif
|-
| rowspan="2" |{{kereta api|Turangga}}
|[[Kereta wisata komersial di Indonesia|''Panoramic'']]
|-
|Eksekutif
|-
| rowspan="2" |{{kereta api|Mutiara Selatan}}
|Eksekutif
|-
|Ekonomi Premium
|-
! colspan="5" |Kereta api pendukung (kelas campuran)
|-
| rowspan="2" |{{kereta api|Wijayakusuma}}
|Eksekutif
| rowspan="2" |{{sta|Cilacap}}
| rowspan="2" |{{sta|Ketapang||Banyuwangi}}
| rowspan="2" |Via {{sta|Yogyakarta}}–{{sta|Surabaya Gubeng}}
|-
|Ekonomi Premium
|-
! colspan="5" |Kereta api pendukung (kelas ekonomi)
|-
|{{KA|Sri Tanjung}}
| rowspan="2" |Ekonomi
|{{sta|Lempuyangan}}
|{{sta|Ketapang||Banyuwangi}}
|Via {{sta|Surabaya Kota}}
|-
|{{kereta api|Pasundan}}
|{{sta|Kiaracondong}}
|{{sta|Surabaya Gubeng}}
|Via {{sta|Tasikmalaya}}–{{sta|Lempuyangan}}
|}
{| class="wikitable"
|Eksekutif
|-
! colspan="5" align="center" |Kereta api sekunderpendukung (kelas campuran)
|-
| rowspan="2" |{{kereta api|Malioboro Ekspres}}
|Eksekutif
| rowspan="46" |{{sta|Purwokerto}}
| rowspan="4" |{{sta|Malang}}
| rowspan="2" |Via {{Sta|Yogyakarta}}–{{sta|Blitar}}{{Status KA|Malioboro Ekspres}}
|-
| rowspan="2" |{{kereta api|Kertanegara}}
| Eksekutif
| rowspan="2" |Via {{Sta|Yogyakarta}}–{{sta|Blitar}}
|-
|Ekonomi
|-
| rowspan="2" |{{kereta api|Logawa}}
|Bisnis
| rowspan="2" |{{sta|Jember}}
| rowspan="2" |Via {{sta|Lempuyangan}}–{{sta|Surabaya Gubeng}}
|-
|Ekonomi
| rowspan="2" |{{kereta api|Bangunkarta}}
|Eksekutif
| rowspan="72" | {{sta|Pasar Senen}}
| rowspan="2" |{{sta|Jombang}}
| rowspan="2" |Via {{sta|Purwokerto}}–{{sta|Yogyakarta}}
|-
|Ekonomi
|-
| rowspan="2" |{{kereta api|Ranggajati}}
|Eksekutif
| rowspan="2" |{{sta|Cirebon}}
| rowspan="2" |{{sta|Jember}}
| rowspan="2" |Via {{sta|Purwokerto}}–{{sta|Surabaya Gubeng}}
|-
|Bisnis
|-
| rowspan="2" |{{kereta api|Gaya Baru Malam Selatan}}
|Eksekutif
| rowspan="34" | {{sta|SurabayaPasar GubengSenen}}
| rowspan="52" | Via {{sta|Purwokerto}}–{{sta|LempuyanganSurabaya Gubeng}}
| rowspan="4" | Via {{sta|Purwokerto}}–{{sta|Lempuyangan}}
|-
|Ekonomi
|-
|{{kereta api|Jayakarta}}
|Ekonomi Premium
|-
| rowspan="2" |{{kereta api|Singasari}}
|-
|Ekonomi
|-
! colspan="5" |Kereta api pendukung (kelas ekonomi)
|-
|{{kereta api|Jayakarta}}
|Ekonomi Premium
|{{sta|Pasar Senen}}
|{{sta|Surabaya Gubeng}}
|Via {{sta|Purwokerto}}–{{sta|Lempuyangan}}
|}
|Ekonomi Premium
|-
! colspan="5" align="center" |Kereta api sekunderpendukung (kelas campuran)
|-
|{{kereta api|Pasundan}}
| rowspan="2" |Ekonomi
| rowspan="2" |{{sta|Kiaracondong}}
|{{sta|Surabaya Gubeng}}
| rowspan="2" |Via {{sta|Tasikmalaya}}–{{sta|Lempuyangan}}
|-
|{{kereta api|Kahuripan}}
|{{sta|Blitar}}
|-
| rowspan="2" |{{kereta api|Malabar}}
| rowspan="2" |{{sta|Malang}}
| rowspan="2" |Via {{sta|Tasikmalaya}}–{{sta|Yogyakarta}}
|-
|Ekonomi
|}
{| class="wikitable"
|+Lintas timur Jawa
!Nama kereta api
!Kelas
! colspan="2" |Relasi perjalanan
!Keterangan
|-
! colspan="5" align="center" |Kereta api sekunder
|-
|{{KA|Sri Tanjung}}
|Ekonomi
|{{sta|Lempuyangan}}
|{{sta|Ketapang||Banyuwangi}}
|Via {{sta|Surabaya Kota}}
|-
| rowspan="2" |{{kereta api|Logawa}}
|Bisnis
| rowspan="2" |{{sta|Purwokerto}}
| rowspan="2" |{{sta|Jember}}
| rowspan="2" |Via {{sta|Lempuyangan}}–{{sta|Surabaya Gubeng}}
|-
|Ekonomi
|Ekonomi Premium
|-
! colspan="5" |Kereta api pendukung (kelas ekonomi)
| rowspan="2" |{{kereta api|Ranggajati}}
|Eksekutif
| rowspan="2" |{{sta|Cirebon}}
| rowspan="2" |{{sta|Jember}}
| rowspan="2" |Via {{sta|Purwokerto}}–{{sta|Surabaya Gubeng}}
|-
|{{KA|Sri Tanjung}}
|Bisnis
| rowspan="2" |Ekonomi
|{{sta|Lempuyangan}}
|{{sta|Ketapang||Banyuwangi}}
|Via {{sta|Surabaya Kota}}
|-
|{{kereta api|Pasundan}}
|{{sta|Kiaracondong}}
|{{sta|Surabaya Gubeng}}
|Via {{sta|Tasikmalaya}}–{{sta|Lempuyangan}}
|}
==== Lokal ([[Commuter Line]]) ====
{| class="wikitable"
| 