Sequence
atgc intronic sequence ATGC exonic sequence...ctgtgaagctaatggtgtgcattagattgtgctgtgctacacctttcatcttttcttttcactttcaattattcaaaagaattttctttcataactgcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA
Basic information
species | Glycine max |
transcript | GLYMA03G01300.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g58750.2 (Oryza sativa), 3'ss of exon 3
ctgtgaagctaatggtgtgcattagattgtgctgtgctacacctttcatcttttcttttcactttc---aattattcaaaagaattttctttcataac--------tgcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA--
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----------atttgttgacgcaactttttgtttgattac-ccatatatttttgtggtaaattctctaagatcatctaataatccttttggtggaaacaactatgcttcagGAAGAAGCTAAATCAGTTGGACAACTTCGGAGC-AAAGGTTAGCAA-TTTGCTTGGCTGTTGCTGCGAAGGTGACGAGAGATTGCTTGTTGCAGAATACATG
upper sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G382104_T02 (Zea mays), 3'ss of exon 3
ctgtgaagctaatggtgtgcattagattgtgctgtgct-acacctttcatcttttcttttcactttcaattattcaaaagaattttct------ttcataact-gcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA
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------tgcataggat-tgaattttatt-tgctttacccacaagtgcaaattttctaggacatggtcaaacactcaaaatgaccttttgtgaaatacgtaatttgtagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGCGATGAGAGATTGCTTGTTGCAGAATACA
upper sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G055561_T01 (Zea mays), 3'ss of exon 4
---ctgtgaagctaatggtgtgcattagattgtgctgtgctacacctttcatcttttcttttcactttcaattattcaaaagaattttctttcataactgcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA
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tcttttttgtgtatatgat-tggattttatttgcttgccccgaaagtgcaaattttctaagacatggtcaaacaatcaatctggcctt--ttgatttgtgcagGAAGAAGCTAGATCAGTTGGCCTGCTCCGAAGCAAAAGGTTGGCAAATTTGCTTGGCTGTTGCTGCGAAGGTGATGAAAGGTTGCTTGTTGCAGAATACA
upper sequence: GLYMA03G01300.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g02900.t01 (Vitis vinifera), 3'ss of exon 3
ctgtgaagc-taatggtgtgcattagattgtgctgtgctacacctttcatcttttcttttcactttcaatta-ttcaaaagaattttctttcataactgcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA
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atattttgcataaaggtccatcctaattttcgctgtccttc--ttcacaaaagttccaaaccttatgactgaactttgacagtttttcctttgcaaccttagGAAGAAGCAAGAGCAGTTGGTCAGCTCCGCAACCATAGATTGGCAAATTTGCTTGGTTGTTGTTGTGAGGATAATGAAAGGTTGCTGGTGGCGGAATATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatcttttcttttcactttcaattattcaaaagaattttctttcataactgcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA
tcataac putative branch site (score: 2)
ttttctttcat CT-rich tract
aattattcaaaagaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgtgaagctaatggtgtgcattagattgtgctgtgctacacctttcatcttttcttttcactttcaattattcaaaagaattttctttcataactgcagGAGGAATCAAGATCAGTTGGTCAGCTTCGTAACCAAAGGTTGGCAAATTTGCTTGGTTGTTGCTGTGAAGGGGAGGAGAGGTTGCTTGTGGCAGAATATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG