Sequence
atgc intronic sequence ATGC exonic sequencegtagattaagtgatcaggcttttatgatggttttcatgtctgcatttaagcagaacaatttactgttgttttgatgcccaaaaatgtatatatactgcgaaagatgtgttctgtgaattagatgttccacaatgcacagaaattttaagtatggatttttcttttgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG
Basic information
species | Glycine max |
transcript | GLYMA19G39580.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os04g52690.3 (Oryza sativa), 3'ss of exon 7
gtagattaagtgatcaggcttttatgatggttttcatgtctgcatttaagcagaacaatttactgttgttttgatgcccaaaaatgtatatatactgcgaaagatgtgttctgtgaattagatgttccacaatgcacagaaattttaagtatggatttttcttt--tgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG
|| || |||| | ||| ||| | | | ||| | || || | | || | | | ||||| | | ||| || ||| | | | || | | | ||||||||| | | | |||||||| ||||| ||||||||||| |||||||| ||||| || || ||||| ||||| |||||| |||||
---------------------gtaagaca-ttttaacgtcctgttttttg----atatctta-tattcttctagctctcagacccattagcagactgctttgg---catcgtgtatatgtgatttaacttgctttcatcaagtacttgatttggatttttatgtgctacagGTTCCTAATGTCAAATGGGAGGACGTTGGTGGTCTTGAGGAAGTGAAAAAGGTTATTCTAGATACTATTCAG
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G445617_T02 (Zea mays), 3'ss of exon 8
gtagattaagtgatcaggcttttatgatggttttcatgtctgcatttaagcagaacaatttactgttgttttgatgcccaaaaatgtatatatactgcgaaagatgtgttctgtgaattagatgttccacaatgcacagaaattttaagtatggatttttcttttgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG----------------------------
| | | || | | | | ||| | | | | | | ||| | ||| | || |||| || | | || | | |||| ||| || ||| ||||||| ||||| |||||||| |||||||||||||| || ||||| ||||| ||||| |||||| |||||
-------------------------------------------------gtaaacattttgattctagctttcaggactatca--gctgataggccatgaatcgtacgta--gtgattttaacttgcc---------------tctgagtacaaattgtttttt---agGTTCCTAATGTCAAATGGGAAGATGTTGGTGGGCTAGAGGATGTGAAAAAGGTTATTCTAGATACTATTCAGGTAAATTGGACTTGATTCAACTGTAAAT
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G03000.1 (Arabidopsis thaliana), 3'ss of exon 7
gtagattaagtgatcaggcttttatgatggttttcatgtctgcatttaagcagaacaatttactgttgttttgatgcccaaaaatgtatatatac-tgcgaaagatgtgttctgtgaattagatgttccacaatgcacagaaattttaagtatggatttttcttttgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG----------------------------
||| ||| ||| | ||| | || || | | | | | | ||| ||| | || |||| | | || | | |||| | |||| | || | ||||||| |||||||||||||| ||||||||||||||||| ||||| || | ||| || |||| || |||||
---------------------------------------------gtaacattcacagttttc--ttgctgtggtgttttctcgtttgtttgtctatttatgagacaagtttgcatatttttttgttactggagatgcacataacttaaaggtttatttgtattc-gtagGTTCCAAATGTGAAATGGGATGATGTTGGTGGGCTTGAGGATGTGAAGACATCGATATTGGACACAGTTCAACTACCTCTCCTGCATAAAGATTTATTTT
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv07s0104g01610.t01 (Vitis vinifera), 3'ss of exon 7
gtagattaagtgatcaggcttttatgatggttttcatgtctgcat-ttaagcagaacaatttactgttgttttgatgcccaaaaatgtatatatactgcga-aagatgtgttctgtgaattagatgttccacaatgcacagaaattttaagtatggatttttcttttgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG
||| | | || || | | || || | || ||| || | || | | ||| | | | | || || | | || | | | || | | | | || | ||| | || | | ||||||| ||||| |||||||| ||||||||||||||||| ||||| || || || ||||| ||||||||||||
gtaaactgag-----gagcaatagtagctaaatttgtgccatgatgttacattctgggtttgatcattcagcaaaagttttaaattttcttgagcaggcagtgagttctcttttcttcctagagaaatctattgctgcctgtatttctgagtctttcttgctttgacctagGTTCCTAATGTCAAATGGGAAGATGTTGGTGGGCTTGAGGATGTGAAGAAGTCGATTCTAGATACTGTTCAG
upper sequence: GLYMA19G39580.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S68_6V6.1 (Physcomitrella patens), 3'ss of exon 8
gtagattaagtgatcaggcttttatgatggttttcatgtctgcatttaagcagaacaatttactgttgttttgatgcccaaaaatgtatatat-actgcgaaagatgtgttctgtgaattagatgttccacaatgcacagaaattttaagtatggatttttcttttgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG
|| || | | | ||||||| | || ||| ||| || | | |||| || | || ||||| | ||| | | || ||| ||| |||| |||||||||||||| |||||||| |||||||| ||||| ||||| | ||||| || || || |||
------------------------------------------------------------------ggtcaagaagtct---agtgtatatgttgcttcgacagagcatttgcatcccgtgcatgtggcattgt-tactactattttcaatattgttgttgtatttccagATTCCAAATGTGAAATGGGAAGATGTTGGGGGGCTTGAGGATGTGAAAAAGGCTATTCTCGACACAGTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattagatgttccacaatgcacagaaattttaagtatggatttttcttttgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG
tttttcttttgc CT-rich tract
aaattttaagtatgga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagattaagtgatcaggcttttatgatggttttcatgtctgcatttaagcagaacaatttactgttgttttgatgcccaaaaatgtatatatactgcgaaagatgtgttctgtgaattagatgttccacaatgcacagaaattttaagtatggatttttcttttgcagGTTCCGAATGTGAAATGGGAGGATGTTGGTGGGCTTGAAGATGTCAAAAAATCAATTCTGGATACTGTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG