Sequence
atgc intronic sequence ATGC exonic sequencegtatagttgaatgtgtatattatattcgcttctactatttttctcctcgtcatccttgtactgtccttcatatacttttcaagtttcactaaaattgggcattgtgcataacagGCCAATTTTCCATCCCTTGAAAGCTTGGTAGCTAAAATTCATGAAGATCGAAGAGTTGCTGAGAGGGCCCTTGATCTTCCCTTGTATTCAAGTTTTAAGA
Basic information
species | Glycine max |
transcript | GLYMA08G06330.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G06330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0181g00130.t01 (Vitis vinifera), 3'ss of exon 9
gtatagttgaatgtgtatattatattcgcttctactatttttctcctcgtcatccttgtactgtccttcatatacttttcaagtttcactaaaattgggcattgt-gcataacagGCCAATTTTCCATCCCTTGAAAGCTTGGTAGCTAAAATTCATGAAGATCGAAGAGTTGCTGAGAGGGCCCTTGATCTTCCCTTGTATTCAAGTTTTAAGA
|||| | | || |||| | | || || ||| |||| || | | | ||| ||| | || | |||| |||||||||||||| |||||||||| ||| || |||| || |||||||| ||| | ||| |||| || || || ||||||||||||||||| |||| || |||
---------------------gtattagtaatca--atcagcagcctccttacccaagtcctgaccttt---taaatattatgtt--actgatttttgtacttgtcatgcaacagGCCAATTTTTCATCCCTTGAGAGCCTGATAGCAAAGATTCATGAGGATAGGAGAATTGCAGAAAGAGCTCTTGATCTTCCCTTGTACTCAAACTTCAAGG
upper sequence: GLYMA08G06330.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 10
gtatagttgaatgtgtatattatattcgcttctactatttttctcctcgtcatccttgtactgtccttcatatacttttcaagtttcactaaaattgggcattgtgcataacagGCCAATTTTCCATCCCTTGAAAGCTTGGTAGCTAAAATTCATGAAGATCGAAGAGTTGCTGAGAGGGCCCTTGATCTTCCCTTGTATTCAAGTTTTAAGA
|||| | | || |||| | | || || ||| | || || | | | ||| | | ||| | || |||||||||||||| |||||||||| ||| || |||| || |||||||| ||| | ||| |||| || || || ||||||||||||||||| |||| || |||
---------------------gtattagtaatca--atcagcagcctccttacccaagtcctgactttt---taaatattatgttac-tgatttttgtacttttcatgcaacagGCCAATTTTTCATCCCTTGAGAGCCTGATAGCAAAGATTCATGAGGATAGGAGAATTGCAGAAAGAGCTCTTGATCTTCCCTTGTACTCAAACTTCAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgtccttcatatacttttcaagtttcactaaaattgggcattgtgcataacagGCCAATTTTCCATCCCTTGAAAGCTTGGTAGCTAAAATTCATGAAGATCGAAGAGTTGCTGAGAGGGCCCTTGATCTTCCCTTGTATTCAAGTTTTAAGA
cactaaa putative branch site (score: 2)
atatactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagttgaatgtgtatattatattcgcttctactatttttctcctcgtcatccttgtactgtccttcatatacttttcaagtttcactaaaattgggcattgtgcataacagGCCAATTTTCCATCCCTTGAAAGCTTGGTAGCTAAAATTCATGAAGATCGAAGAGTTGCTGAGAGGGCCCTTGATCTTCCCTTGTATTCAAGTTTTAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG