Sequence
atgc intronic sequence ATGC exonic sequence...tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
Basic information
species | Glycine max |
transcript | GLYMA19G43360.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os10g28320.3 (Oryza sativa), 3'ss of exon 4
-tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG---
||| || | | || | ||| | | | || | | ||| | | ||| |||| || | | |||||||||||||||||||||||| ||||||||||| |||| || ||||| |||| ||||| | | | | | | | || | | || | |||
tgttagctcctattcaagtttgtgcatcatttactccttgttcattgaacctccacatcgcttcaccgtgcc-actcattcgaagcattacttgtgttcagGGAGCTTGGCATTGGAATTGTTCCATATAGCCCAATTGGCCGTGGCTTCTTTGCTGGCAGGGCTGCTGTACAGAGCATACCATCTGAGAGTTGGCTGGTA
upper sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os10g28320.1 (Oryza sativa), 3'ss of exon 4
-tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
||| || | | || | ||| | | | || | | ||| | | ||| |||| || | | |||||||||||||||||||||||| ||||||||||| |||| || ||||| |||| ||||| | | | | | | | || | | || | |||
tgttagctcctattcaagtttgtgcatcatttactccttgttcattgaacctccacatcgcttcaccgtgcc-actcattcgaagcattacttgtgttcagGGAGCTTGGCATTGGAATTGTTCCATATAGCCCAATTGGCCGTGGCTTCTTTGCTGGCAGGGCTGCTGTACAGAGCATACCATCTGAGAGTTGGCTG
upper sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G024315_T01 (Zea mays), 3'ss of exon 4
tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattga----tacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
| || | || || | | | | | | || ||| ||| | | | ||| | | | |||| | || | ||| || | |||||||||||||||||||| || |||||||| || || ||||||||||| | |||||| ||| ||||| | | |||
---gaacaaggtcttaatacatatgtattgttacaaatacgtaaccaaacaaagcctac-cggatattatcatgtattaagattctttatgctgtggacttcagAGAATTGGGCATTGGAATTGTACCATACAGTCCTCTTGGCCGTGGGTTTTTTGGTGGAAGAGGAGTGAAAGAACAAGTGTCTGCTGAATCTAATCTG
upper sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM5G813143_T02 (Zea mays), 3'ss of exon 4
-tttaatcactggcta---catgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
| || || || ||| | | | | | | || | || ||||| | || | | |||| || ||| |||||||||||| |||||||| || ||||||||||| ||||| || ||||| |||| ||||| | || | | ||| ||| || ||| || ||
ttgcaagttctaattaacttatgcttcatttttcttatctttggttcgttgaacatcgatatcatgcatttatctgtttgtcataaatgcttgcatt----cagGGAGCTTGGTATTGGAATAGTTCCATATAGCCCACTTGGCCGTGGCTTCTTTGCTGGCAGGGCAGCTGTAGAACGTGTTCCATCAGAAAGTCTATTG
upper sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0030g01960.t01 (Vitis vinifera), 3'ss of exon 4
----tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
||| || | ||| | | || || | | ||||| || | | || | || | | | | |||| || ||||||||||||||||||||| || ||||| | ||||||||||| || ||||||||||| | |||||| |||||| | || | || || |
aaggattatatgcttgatacctttcttgtatggctacaactctctctctctctcttaattataa---atatgacatgctgtt-ttcatttatttaaatatgcagGGAGCTTGGCATTGGAATAGTTCCATACTGTCCTCTTGGTCGTGGATTTTTTGGTGGTAGGGGAGTTGTGGAAAGTTTGCCTGCA--TACTTG----
upper sequence: GLYMA19G43360.1 (Glycine max), 3'ss of exon 4
lower sequence: PP1S158_112V6.2 (Physcomitrella patens), 3'ss of exon 5
tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacg---ttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG----
| | | | | | | || || || | | ||||| | || | ||| | | | | | | | |||||||||||| |||||||| || || |||||||||||||| ||||| || || ||| |||| || | || | || || || || |
---accgagtaataatgaaatgacaaggactacatcaaatcttcacactgctagttaaagtctacagattcactgagtggataataaaaccccacttctgcagGGAGCTTGGAATTGGAATAGTGCCCTATAGCCCTCTTGGGCGAGGATTCTTCTCTGGGAAAGCCGTCGTTGAGAAACTGG-AAGAGCAAGACTATCGATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
ctttttatt CT-rich tract
aaaattaaaatgca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttaatcactggctacatgtgaaaagaggttaaattaagagaaataaaataaaattaaaatgcacgttacttactttggtaaagctttttattgatacagGGAGCTTGGCATTGGAATTGTACCATATAGCCCTCTTGGTCGAGGCTTTTTTGGTGGCAAAGGAGTTCTGGAAACTGTGTCAACAGTTAGCTCCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - -tggctac
- - - - - - - - - - gaaaagag
- - - - - - - - - - - - - - - - - - aagagaaa
- - - - - - - - - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgcac