Sequence
atgc intronic sequence ATGC exonic sequence...aaaatatatattcgaattgggttgaggattaattggttaattcctatgtttcatttcacatgtgatcaattagttaatttggatgtattgtttgttgcagCAAATGTCTAGCCAGTCATTGGAGAACATGTTGGCATGTTCAAAAGCACAGCAAGAGAGGAAGCCAAGGCCTCAGCCAGAACAGGCTCTGAAGTGTCCCA
Basic information
species | Glycine max |
transcript | GLYMA12G07710.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07710.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g03420.t01 (Vitis vinifera), 3'ss of exon 1
aaaatatatattcgaat-tgggttgaggattaattggttaattcctatgtttcatttcacatgtgatcaattagttaatttggatgtattg-tttgttgcagCAAATGTCTAGCCAGTCATTGGAGAACATGTTGGCATGTTCAAAAGCACAGCAAGAGAGGAAGCCAAGGCCTCAGCCAGAACAGGCTCTGAAGTGTCCCA---
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-ctctatatatacatatatatgtatgggagtggtctggagcttcatatatatcttaccatttttcttcaattaattg-tataattatgttgatttgtttcagGAAATGGATACCCAGTCACTAGAAAGCATGTTGGTTTGCTCAAAAGCACAGCAGGAGAGGAAACCAAGGCC---ACCAGAACAAGCTCTAAAATGCCCAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtttcatttcacatgtgatcaattagttaatttggatgtattgtttgttgcagCAAATGTCTAGCCAGTCATTGGAGAACATGTTGGCATGTTCAAAAGCACAGCAAGAGAGGAAGCCAAGGCCTCAGCCAGAACAGGCTCTGAAGTGTCCCA
agttaat putative branch site (score: 4)
atcaattagttaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatatatattcgaattgggttgaggattaattggttaattcctatgtttcatttcacatgtgatcaattagttaatttggatgtattgtttgttgcagCAAATGTCTAGCCAGTCATTGGAGAACATGTTGGCATGTTCAAAAGCACAGCAAGAGAGGAAGCCAAGGCCTCAGCCAGAACAGGCTCTGAAGTGTCCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - -tgggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatgt