Sequence
atgc intronic sequence ATGC exonic sequence...tgattcttgttgatataatttattttcataagaacaactacagctatttaatattttgttctctttcaatagctacttgactaatatcttctaattgtagGATTTTAACATAAGTTCAAAAGACTTGAATAATTTCTTTGGTGGACCTGCTTTCCTTGCTTGGGCTCGCATGGGAAATTTACATGG
Basic information
species | Glycine max |
transcript | GLYMA10G11720.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G11720.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G033592_T01 (Zea mays), 3'ss of exon 4
tgattcttgttg--atataattt---attttcataagaacaactacagctatttaatattttgttctctttcaatagctacttgactaatatcttctaattgtagGATTTTAACATAAGTTCAAAAGACTTGAATAATTTCTTTGGTGGACCTGCTTTCCTTGCTTGGGCTCGCATGGGAAATTTACATGG
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---ttcttgtccccacgtcattttgaacttatgctgtgttttgagtttcttctcaacctcctgttgccatgggggcctta-ttaatcaatgcattttattt-cagAGTTTTAATGTTACCGACAGAGATTTAGATGATTTTTTTGGTGGACCAGCTTTCCTTGCTTGGGCTAGAATGGGGAACTTGCATGG
upper sequence: GLYMA10G11720.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G13690.1 (Arabidopsis thaliana), 3'ss of exon 4
----------tgattcttgttgatataatttattttcataagaacaactacagctatttaatattttgttctctttcaatagctact--tgactaa------tatcttctaattgtagGATTTTAACATAAGTTCAAAAGACTTGAATAATTTCTTTGGTGGACCTGCTTTCCTTGCTTGGGCTCGCATGGGAAATTTACATGG
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gtaaaaagtcagattgcattagtaattgtttgctgtgacatgattagatattgcaacttttttatttaatataagttgatatataccgctaaccaagttctatatcaattttgtttagAGGTTCAATATCAGCAAAGAAGATCTGGATGATTATTTTGGTGGACCAGCGTTTCTTGCTTGGGCTCGCATGGGAAATCTTCACGC
upper sequence: GLYMA10G11720.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv13s0064g00370.t01 (Vitis vinifera), 3'ss of exon 4
tgattcttgttgatataatttattttcataagaacaactacagctatttaatat-tttgttctctttcaatagcta-cttgactaatatcttctaattg---tagGATTTTAACATAAGTTCAAAAGACTTGAATAATTTCTTTGGTGGACCTGCTTTCCTTGCTTGGGCTCGCATGGGAAATTTACATGG
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tgattat-gtcaa-atattgcagctt--taattatga-tgtagttgtctggcatattcactgtttttcatttgttttcctggttttttttttcttttcaaaatagGATTTTAACATTAGTAAGAAAGATTTGAATGGTTTCTTTGGTGGACCTGCTTTCCTTGCCTGGGCTCGTATGGGAAATTTGCATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttaatattttgttctctttcaatagctacttgactaatatcttctaattgtagGATTTTAACATAAGTTCAAAAGACTTGAATAATTTCTTTGGTGGACCTGCTTTCCTTGCTTGGGCTCGCATGGGAAATTTACATGG
ttctaat putative branch site (score: 2)
tatcttct CT-rich tract
taatatcttctaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgattcttgttgatataatttattttcataagaacaactacagctatttaatattttgttctctttcaatagctacttgactaatatcttctaattgtagGATTTTAACATAAGTTCAAAAGACTTGAATAATTTCTTTGGTGGACCTGCTTTCCTTGCTTGGGCTCGCATGGGAAATTTACATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA