Sequence
atgc intronic sequence ATGC exonic sequencegttattacaattctgagacagaaaatatgaaatagaaaaaagtaatgatttaactgtttctgcttggctttcctttggaattagGTGGGAAGATACAAGAGCCCAGATGAGCATGCTTTCTTCCCTGAAGACTTACCCGAGCCAATGCTTCCACCTTTGCT
Basic information
species | Glycine max |
transcript | GLYMA02G12580.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G12580.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G028369_T01 (Zea mays), 3'ss of exon 2
gttattacaattctgagacag---aaaatatgaaatagaaaaaagtaatgatttaactgtttctgcttggctttcctttggaattagGTGGGAAGATACAAGAGCCCAGATGAGCATGCTTTCTTCCCTGAAGACTTACCCGAGCCAATGCTTCCACCTTTGCT----------
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gtggaattcatttggacattttttaagaacaaaaacagttgatcatggcatgcaaaagaataacatacgctattgtttttaacatagGTTGGGAGATACAAGAGCCCAGATGAGCACCCTTTCTTTCCTGAGGATCTGCCTGAGCCCCGGTTGCCACCTATGCAGTACCCAAGG
upper sequence: GLYMA02G12580.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G124365_T02 (Zea mays), 3'ss of exon 1
--------------gttattacaattctgagaca--gaaaatatgaaatagaaaaaagtaatgatttaactgtttctgcttggctttcctttggaattagGTGGGAAGATACAAGAGCCCAGATGAGCATGCTTTCTTCCCTGAAGACTTACCCGAGCCAATGCTTCCACCTTTGCT----------
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agctccatgcacaggtgaatccatttggatttctttaaaaaaacaaaacaattgatcatggcatgcgaaagaataacatgtgctaatgtttgtaacatagGTTGGGAGATACAAGAGCCCAGATGAGCACCCTTTCTTTTCCAAGGATCTGCCTGAGCCCCGGTTGCCACCTATGCAATACCCAAGG
upper sequence: GLYMA02G12580.1 (Glycine max), 3'ss of exon 1
lower sequence: GRMZM2G124365_T01 (Zea mays), 3'ss of exon 2
gttattacaattc--tgagacagaaaatatgaaatagaaaaaagtaatgatttaactgtttctgcttggctttcctttggaattagGTGGGAAGATACAAGAGCCCAGATGAGCATGCTTTCTTCCCTGAAGACTTACCCGAGCCAATGCTTCCACCTTTGCT----------
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gtgaatccatttggatttctttaaaaaaacaaaacaattgatcatggcatgcgaaagaataacatgtgctaatgtttgtaacatagGTTGGGAGATACAAGAGCCCAGATGAGCACCCTTTCTTTTCCAAGGATCTGCCTGAGCCCCGGTTGCCACCTATGCAATACCCAAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatagaaaaaagtaatgatttaactgtttctgcttggctttcctttggaattagGTGGGAAGATACAAGAGCCCAGATGAGCATGCTTTCTTCCCTGAAGACTTACCCGAGCCAATGCTTCCACCTTTGCT
atttaac putative branch site (score: 3)
cttggctttccttt putative PPT
aaaaaagtaatgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattacaattctgagacagaaaatatgaaatagaaaaaagtaatgatttaactgtttctgcttggctttcctttggaattagGTGGGAAGATACAAGAGCCCAGATGAGCATGCTTTCTTCCCTGAAGACTTACCCGAGCCAATGCTTCCACCTTTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA