Sequence
atgc intronic sequence ATGC exonic sequencegtatagctatatcattttcagaatttcttgatcattaatttctattattgtacaactaaagcttctaatattcctattcttgttcttgtccataaacactgcgtcataagttcattcatagacatattgtgtttctggtctcttgcagGGAGCATCTGAGTCATTGAATATGTCAGTGGCTTTTATTTCTGTCATCTTGCTTCCAATTGTAGGCAATGCTGCAGAACATGCCAGTGCTATCATGTTTG
Basic information
species | Glycine max |
transcript | GLYMA15G00380.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G00380.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G040017_T02 (Zea mays), 3'ss of exon 7
gtatagctatatcattttcagaatttcttgatcattaatttctattattgtacaactaaagcttctaatattcctattcttgttcttgtccataaacactgcgtcataagttcattcatagacatattgtgtttctggtctcttgcagGGAGCATCTGAGTCATTGAATATGTCAGTGGCTTTTATTTCTGTCATCTTGCTTCCAATTGTAGGCAATGCTGCAGAACATGCCAGTGCTATCATGTTTG
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------------------------------------------tattaccatgatgtacaattgtacattggtagtattacagagatcatctgatacctctgca--atgatgtaactggtcactgttttgatctattgctgtt----agGGAGCATCTGATTCATTGAACCTACCGGTGGCTTTTATCAGTGTTATTTTGCTTCCTATTGTGGGCAATGCAGCTGAACATGCAAGTGCAATAATGTTTG
upper sequence: GLYMA15G00380.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G143356_T01 (Zea mays), 3'ss of exon 8
gtatagctatatcattttcagaatttcttgatcattaatttctattattgtacaactaaagcttctaatattcctattcttgttcttgtccataaacactgcgtcataagttcattcatagacatattgtgtttctggtctcttgcagGGAGCATCTGAGTCATTGAATATGTCAGTGGCTTTTATTTCTGTCATCTTGCTTCCAATTGTAGGCAATGCTGCAGAACATGCCAGTGCTATCATGTTTG
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-----------------------------------tagttattattatt-----accatgatgtacatcagtagtattacaggtc--atctgatacctctgcg--atgatgtaactggtcactgttttgatctattgttgtc----agGGAGCATCTGATTCATTGAACCTACCGGTGGCTTTTATCAGTGTTATTTTGCTTCCTATTGTGGGCAATGCAGCTGAACATGCAAGCGCAATAATGTTTG
upper sequence: GLYMA15G00380.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv09s0018g01840.t01 (Vitis vinifera), 3'ss of exon 7
gtatagctatatcattttcagaatttcttgatcattaatttctattattgtacaactaaagcttctaatattcctattcttgttcttgtc-cataaacactgcgtcataagttcattcatagacatattgtgtttctggtctcttg-cagGGAGCATCTGAGTCATTGAATATGTCAGTGGCTTTTATTTCTGTCATCTTGCTTCCAATTGTAGGCAATGCTGCAGAACATGCCAGTGCTATCATGTTTG
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-------------------------------------------tttattatgcttt-----ccttcaacatta--atttatgttctggaggtagaaaggctattggttgtgaacagttgacaaatcaatttttttctggtttcttttcagGGAGCATCTGAGTCATTAAACATGCCAGTGGCTTTTATTAGTGTCATTCTGCTTCCAATTGTAGGAAATGCTGCTGAGCATGCCAGTGCAATTATGTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaacactgcgtcataagttcattcatagacatattgtgtttctggtctcttgcagGGAGCATCTGAGTCATTGAATATGTCAGTGGCTTTTATTTCTGTCATCTTGCTTCCAATTGTAGGCAATGCTGCAGAACATGCCAGTGCTATCATGTTTG
tctcttgc CT-rich tract
ataagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatagctatatcattttcagaatttcttgatcattaatttctattattgtacaactaaagcttctaatattcctattcttgttcttgtccataaacactgcgtcataagttcattcatagacatattgtgtttctggtctcttgcagGGAGCATCTGAGTCATTGAATATGTCAGTGGCTTTTATTTCTGTCATCTTGCTTCCAATTGTAGGCAATGCTGCAGAACATGCCAGTGCTATCATGTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG