Sequence
atgc intronic sequence ATGC exonic sequence...atatagctctattggtccatcacagcactgtttaccgtttagtttttagtcatgatgcaatcacaacacaaatattaacttgttttcttctgggaatcagTATGCTTGCAGAAAGACATTGGCAGATAGCAGGCCACGTATCAGAGGGCGATTTGCAAGGAATGGCGAAATTGCAATTAACCCTCCAGCTCAGTGGAGTC
Basic information
species | Glycine max |
transcript | GLYMA12G07920.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07920.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g03870.t01 (Vitis vinifera), 3'ss of exon 2
-atatagctctattggtccatcacagcactgtttaccgtttagtttttagtcatgatgcaatcacaacacaaatattaacttgttttcttctgggaatcagTATGCTTGCAGAAAGACATTGGCAGATAGCAGGCCACGTATCAGAGGGCGATTTGCAAGGAATGGCGAAATTGCAATTAACCCTCCAGCTCAGTGGAGTC
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taaacaattttcctgctttgcttttcctttatatatatatatatatatatatat-atatatatatagtagttgaagaagttgattttgtttgttgaatcagTATGCGTGTAGGAAGACATTGGCAGACAGTCGGCCGCGCATCAGAGGGCGGTTTGCGAGGAACGAGGAAATTGAGAAGGGTTCGCAGAGTCAGTGGAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagtcatgatgcaatcacaacacaaatattaacttgttttcttctgggaatcagTATGCTTGCAGAAAGACATTGGCAGATAGCAGGCCACGTATCAGAGGGCGATTTGCAAGGAATGGCGAAATTGCAATTAACCCTCCAGCTCAGTGGAGTC
tattaac putative branch site (score: 1)
cttgttttcttct CT-rich tract
aaatattaacttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatagctctattggtccatcacagcactgtttaccgtttagtttttagtcatgatgcaatcacaacacaaatattaacttgttttcttctgggaatcagTATGCTTGCAGAAAGACATTGGCAGATAGCAGGCCACGTATCAGAGGGCGATTTGCAAGGAATGGCGAAATTGCAATTAACCCTCCAGCTCAGTGGAGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - ctattgg
- - - - - - - - ccatcac
- - - - - - - - - - - - - - - - - - - - - - - - - - tgatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacaaca