Sequence
atgc intronic sequence ATGC exonic sequencegtattttttttttaccttaaatttttcatagtttagtaattggtttgagttcacaagttattgttcttaatatataatccattcaaaatttcttagGTGGGTGGCGTTGCTTGCATTTGGTGAGGGTTGGCACAATAACCACCATGCTTTTGAGTACTCAGCTAGACATGGACTAGAGTGGTGGCAACTAGACATG
Basic information
species | Glycine max |
transcript | GLYMA07G03370.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G03370.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S495_13V6.1 (Physcomitrella patens), 3'ss of exon 4
------gtattttttttttaccttaaatttttcatagtttagtaattggtttga-gttcacaagttattgttcttaatatataatccattcaaaatttcttagGTGGGTGGCGTTGCTTGCATTTGGTGAGGGTTGGCACAATAACCACCATGCTTTTGAGTACTCAGCTAGACATGGACTAGAGTGGTGGCAACTAGACATG
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tgatctggaataaaatttggctctgttgccgcgatgttgattcgattgactcaccgttcataaagtattgaa-ttagttttcttttgtctcttcattgc--agGTGGGTGGCACTTCTTGCATTTGGAGAAGGTTGGCACAATAACCATCATGCTTTTGAATATTCAGCGAGGCATGGACTTGAATGGTGGCAGCTAGACCCA
upper sequence: GLYMA07G03370.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S68_264V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------------------------------------------------------------------------------------------gtatttttttt-ttaccttaaatttttcatagttta---gtaattggtttgagttcacaagttattgttcttaatatataatccattcaaaatttcttagGTGGGTGGCGTTGCTTGCATTTGGTGAGGGTTGGCACAATAACCACCATGCTTTTGAGTACTCAGCTAGACATGGACTAGAGTGGTGGCAACTAGACATG
|||| || || | | ||| | | || | | || || || || | | | | | | || || | ||||||||||| ||||| |||||||| || || |||||||| |||||||| || || || ||||||||| | ||||| || || |||||||| | ||| |
gtgagtatgggaaagctgtgtagggggaagtgtggagagtcggggtgagagatgtgtgtggatggatggtggtgcgagaacagtggtaatgatgtttttgatgtatagccgcagttgtgttgaggatctcaaattgtaagcgggagcagtgtggattggtg-gtggtgactgacgaggttgaggacgttggtggttgc--agGTGGGTGGCATTGCTGGCATTTGGGGAAGGGTGGCACAACAACCACCACGCATTCGAATACTCAGCTCGGCATGGCCTGGAATGGTGGCAGTTGGACCCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtttgagttcacaagttattgttcttaatatataatccattcaaaatttcttagGTGGGTGGCGTTGCTTGCATTTGGTGAGGGTTGGCACAATAACCACCATGCTTTTGAGTACTCAGCTAGACATGGACTAGAGTGGTGGCAACTAGACATG
tcttaat putative branch site (score: 3)
tttctt putative PPT
ttattgttcttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttttttttaccttaaatttttcatagtttagtaattggtttgagttcacaagttattgttcttaatatataatccattcaaaatttcttagGTGGGTGGCGTTGCTTGCATTTGGTGAGGGTTGGCACAATAACCACCATGCTTTTGAGTACTCAGCTAGACATGGACTAGAGTGGTGGCAACTAGACATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG