Sequence
atgc intronic sequence ATGC exonic sequencegtaattaatatgctaaatatgtgtatgtgtcaatggttgaaaatgttcatgtttttccttttttgtttttctatataataatcatcattattagaatattttcattgataaatgatgttgaatcttaattattatttcagAGTCCAGATGGTGATCTCATAGATTGTGTCCATAAAAGAAAACAACCAGCTTTAGATCACCCCCTTTTAAAGAATCACAAGATTCAG
Basic information
species | Glycine max |
transcript | GLYMA03G41280.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G41280.1 (Glycine max), 3'ss of exon 1
lower sequence: AT5G18460.1 (Arabidopsis thaliana), 3'ss of exon 1
gtaattaatatgctaaatatgtgtatgtgtcaatggttgaaaatgttcatgtttttccttttttgtttttctatataataatcatcattattagaatattttcattgataaatgatgttgaatcttaattattatttcagAGTCCAGATGGTGATCTCATAGATTGTGTCCATAAAAGAAAACAACCAGCTTTAGATCACCCCCTTTTAAAGAATCACAAGATTCAG
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-----------gttatatatatgtacatgt---------------ttcaaatgaattttaatttgattttgt-----ctaatcattatg--caaaatattt---------aacttttttataaaataataat--ttacagAGTCCAGATGGTGATGTAATAGATTGTGTACCCAAAAGAAAGCAGCCAGCTTTGGATCATCCACTCTTAAAGCATCACAAGATTCAG
upper sequence: GLYMA03G41280.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0043g00560.t01 (Vitis vinifera), 3'ss of exon 1
gtaattaatatgctaaatatgtgtatg--tgtcaatggttgaaaatgttcatgtttttccttttttgtttttctatataataatcatcattattagaatattttcattgataaatgatgttgaatcttaattattatttcagAGTCCAGATGGTGATCTCATAGATTGTGTCCATAAAAGAAAACAACCAGCTTTAGATCACCCCCTTTTAAAGAATCACAAGATTCAG
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------------gtatatatgtctttggttttccatttttctgcatgagt-tagatttcatctggggtttcttcaattattttctggagatgatgttttcttttc-ttgctttggtttttctgtttttcattggtttctcagAGCCCAGATGGAGATATCATAGACTGCGTTCATAAAAGAAAACAACCTGCTTTGGATCATCCTCTTCTCAAGAATCACAAGATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattattagaatattttcattgataaatgatgttgaatcttaattattatttcagAGTCCAGATGGTGATCTCATAGATTGTGTCCATAAAAGAAAACAACCAGCTTTAGATCACCCCCTTTTAAAGAATCACAAGATTCAG
tcttaat putative branch site (score: 3)
ttatttc putative PPT
attgataaatgatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattaatatgctaaatatgtgtatgtgtcaatggttgaaaatgttcatgtttttccttttttgtttttctatataataatcatcattattagaatattttcattgataaatgatgttgaatcttaattattatttcagAGTCCAGATGGTGATCTCATAGATTGTGTCCATAAAAGAAAACAACCAGCTTTAGATCACCCCCTTTTAAAGAATCACAAGATTCAG
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