Sequence
atgc intronic sequence ATGC exonic sequence...taattttagtttcattatatgcataattccatccccaacccctctaactatgaagtgattatacgaatattaatgaatcaaaacaaaatgaacactttagGGCGCAAGTGGTGGGATGGCCACCCGTGAGGTCTTTCCGGAAGAACATGTTCGCAGCCCAAAAGAGCAGCGGCGGAGAGGAAAGCGAAAAGAGCAGCCCT
Basic information
species | Glycine max |
transcript | GLYMA02G16080.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G16080.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G138268_T01 (Zea mays), 3'ss of exon 1
-taattttagtttcattatatgcataattccatccccaacccctctaac-tatgaagtgattatacgaatattaatgaatcaaaacaaaatgaacactt-tagGGCGCAAGTGGTGGGATGGCCACCCGTGAGGTCTTTCCGGAAGAACA---TGTTCG--CAGCCCAA-AAGAGCAGCGGCGGAGAGGAAAGCGAAAAGAGCAGCCCT
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ataaatctaatgctgg-atctggatgga--cgtctcagtctcatctaccgtgtgtacgttttgagttttgacagagggaggtatattgtatatacacctgcagGGCTCAGGTGGTGGGATGGCCACCGGTCCGGTCGTTCCGGAAGAACATCATGTCCGTGCAGTCCGACAAGGGCGCCGCCGCCGCCAACGGCGACAAGTCC------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aactatgaagtgattatacgaatattaatgaatcaaaacaaaatgaacactttagGGCGCAAGTGGTGGGATGGCCACCCGTGAGGTCTTTCCGGAAGAACATGTTCGCAGCCCAAAAGAGCAGCGGCGGAGAGGAAAGCGAAAAGAGCAGCCCT
tattaat putative branch site (score: 2)
aatattaatgaatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taattttagtttcattatatgcataattccatccccaacccctctaactatgaagtgattatacgaatattaatgaatcaaaacaaaatgaacactttagGGCGCAAGTGGTGGGATGGCCACCCGTGAGGTCTTTCCGGAAGAACATGTTCGCAGCCCAAAAGAGCAGCGGCGGAGAGGAAAGCGAAAAGAGCAGCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - -tgcataa
- - - - - - - - - - - - - - -catcccc
- - - - - - - - - - - - - - - - - - - - - - - - - tgaagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaaa