Sequence
atgc intronic sequence ATGC exonic sequence...caatgtgcatcaaactgacttcagctaaagccttttaacagaggtgtatctattttccctttttttcctcctaatcttatacctagctgaacttcatcagGTAAATCAGAAGATGATCCTCACACTGACAGCAAGTATCATGTACTGGTTTCTGAAACAACCTGTTGAAGAAAGACCATCTGGAGCTTCAGATAGTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0141g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G081380_T02 (Zea mays), 3'ss of exon 12
caatgtgcatcaaactg--acttcagctaaagccttttaacagaggtgtatctattttccctttttttcctccta--atcttatacctagctgaacttcatcagGTAAATCAGAAGATGATCCTCACACTGACAGCAAGTATCATGTACTGGTTTCTGAAACAACCTGTTGAAGAAAGACCATCTGGAGCTTCAGATAGTGAGA----
| | || || | | | || || || | | | | || | | | | || | || || | | | | |||||| || ||||||||||| || || ||||||||||| || |||||||||| | ||||| || | | | ||| |||| | | | | |||
----gcaactgaaggtgctattcggaattcagttttaaaatatccttattccccttgtgatctagtcacgatctgctgtattttatatgttttatttctctcagGTGAACCAGAAGATGATGCTAACTCTGACAGCAAGCATTATGTACTGGTATTTGAAAAGGCCAAC---ATCACAATCAT-TGGACTCTGAAAACGGGAGTTCAT
upper sequence: Vv07s0141g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G45800.1 (Glycine max), 3'ss of exon 13
caatgtgcatcaaactg-acttcagctaaagccttttaacagaggtgtatctattttccctttt-tttcctcctaatcttatacctagctgaacttcat----cagGTAAATCAGAAGATGATCCTCACACTGACAGCAAGTATCATGTACTGGTTTCTGAAACAACCTGTTGAAGAAAGACCATCTGGAGCTTCAGATAGTGAGA
| | | || | || | | | | | | ||| | | | | | ||| | | ||||| | | | ||||| ||||| ||||| ||||||||||| ||||| ||||| ||||| ||||| ||||| | || || ||| | || |||||| || | | |||||| |||||||
----atcgactaggttgtaattttatgtgaacttatcattgcttttttatatgtctacttggtggtttttatgtgaacttat--caatgctattttcatattgcagGTGAATCAAAAGATGATCCTTACACTAACAGCTAGTATAATGTATTGGTTCTTAAAGCACCCTCTGGAGGAAAGAACAGTAGCAAATTCAGACAGTGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatctattttccctttttttcctcctaatcttatacctagctgaacttcatcagGTAAATCAGAAGATGATCCTCACACTGACAGCAAGTATCATGTACTGGTTTCTGAAACAACCTGTTGAAGAAAGACCATCTGGAGCTTCAGATAGTGAGA
tcctaat putative branch site (score: 2)
cttcatc putative PPT
taatcttata TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatgtgcatcaaactgacttcagctaaagccttttaacagaggtgtatctattttccctttttttcctcctaatcttatacctagctgaacttcatcagGTAAATCAGAAGATGATCCTCACACTGACAGCAAGTATCATGTACTGGTTTCTGAAACAACCTGTTGAAGAAAGACCATCTGGAGCTTCAGATAGTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - gcatcaa
- - - - - - - - - -ttcagct
- - - - - - - - - - - - - - - - - -taacaga