Sequence
atgc intronic sequence ATGC exonic sequencegtacgcaatttaaatcatctcttaattaattattcatgtcaacatagatctcatacttaattgttaactttcggagattaaaaaaaaatgtagcaaaggatcttgcgtggctgactttgaaattttactttcttgttcattttttctaaattctgactagtttaatttatgttttttagGCATGTTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAACTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAA
Basic information
species | Glycine max |
transcript | GLYMA02G47710.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G47710.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os07g39630.1 (Oryza sativa), 3'ss of exon 4
gtacgcaatttaaatcatctcttaattaattattcatgtcaacatagatctcatacttaattgttaactttcggagattaaaaaaaaatgtagcaaaggatcttgcgtggctgact-ttgaaattttactttcttgttcattttttctaaattctgactagtttaatttatgttttttagGCATGTTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAACTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAA
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------------------------------------------------------------------------------caactaaggattctgttttacataaaccataaaatactgtagaaattagaaattcctgtcggaatggtgcttatt-tatcttggtaaatgttcactcac-agGTACGTTTTAGAGTCTGACCACATGAAGAAGTTCTTTGACTATATACAACTTCCAAATTTTGACATTGCATCAGATGCTTCTGCGACCTTTAAG
upper sequence: GLYMA02G47710.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G066051_T01 (Zea mays), 3'ss of exon 4
gtacgcaatttaaatcatctcttaattaattattcatgtcaacatagatctcatacttaattgttaactttcggagattaaaaaaaaatgtagcaaaggatcttgcgtggctgactttgaaattttactttcttgttcattttttctaaattctgactagtttaatttatgttttttagGCATGTTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAACTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAA
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---------------------------------------------------------------------------agctagacatccatgatccataag----tgcaaaatttttgttggagttggaagctcctgtggacttttggtgctattttcttatagaacttgttcattgacagGTATGTTTTAGAGTCTGAACACATGAAGAAGTTCTTTGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCGGCTACCTTTAAG
upper sequence: GLYMA02G47710.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G351417_T02 (Zea mays), 3'ss of exon 3
gtacgcaatttaaatcatctcttaattaattattcatgtcaacatagatctcatacttaattgttaactttcggagattaaaaaaaaatgtagcaaaggatcttgcgtggctgactttgaaattttactttcttgttcattttttctaaattctgactagtttaatttatgttttttagGCATGTTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAACTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAA
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----------------------------------------------------------------------------attactaagttggacatccataagt---gcaaaaatattgtcgaaactagaggctcatgtggacttttggtgctattttcttatagaatgtcttcattgacagGTATGTTTTAGAGTCCGAACATATGAAGAAGTTCTTCGACTATATACAGCTTCCAAATTTTGACATAGCTTCTGATGCTTCTGCTACCTTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactttcttgttcattttttctaaattctgactagtttaatttatgttttttagGCATGTTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAACTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAA
tgtttttt CT-rich tract
actagtttaatttatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgcaatttaaatcatctcttaattaattattcatgtcaacatagatctcatacttaattgttaactttcggagattaaaaaaaaatgtagcaaaggatcttgcgtggctgactttgaaattttactttcttgttcattttttctaaattctgactagtttaatttatgttttttagGCATGTTTTGGAATCAGAGCACATGAAGAAGTTTTTTGACTATATTCAGCTACCAAACTTTGAAATAGCATCAGATGCTGTTGCAACTTTTAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT