Sequence
atgc intronic sequence ATGC exonic sequencegtaagtctattgtcttctatatacatattttaatagcaattgctttggcctttagagttggaaagaatttagttattacatggtcagagtcaaactttaaagaaaatgatggatctgctgtaaaattgaatagtctttttgtcactgatcttttctacttcttactggcagTCTTGCGTATTCCATGAGAAAAATGATGGCAGATAAAGCTTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G29900.1 |
intron # | 16 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA15G18180.1 (Glycine max), 3'ss of exon 14
gtaagtctattgtcttctatatacatattttaatagcaattgctttggcctttagagttggaaagaatttagttattacatggtcagagtcaaactttaaagaaaatgatggatctgctgtaaaattgaatagtctttttgtcactgatcttttctac---ttcttactggcagTCTTGCGTATTCCATGAGAAAAATGATGGCAGATAAAGCTTTG
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------------------------------------------------------------------atatgatttttcaa--ataaaatacaattttttt------ccttgtattctctatctaatcgtatttatttgtacttactgcctttttccataaactatgttttatagGCTGGCCTACTCGATGAGAAAAATGATGGCAGATAAAGCCTTG
upper sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA13G00420.1 (Glycine max), 3'ss of exon 14
gtaagtctattgtcttctatatacatattttaatagcaattgctttggcctttagagttggaaagaatttagttattaca-tggtcagagtcaaactttaaagaaaatgatggatctgctgtaaaattgaatagtctttttgtcactgatcttttctacttcttactg-gcagTCTTGCGTATTCCATGAGAAAAATGATGGCAGATAAAGCTTTG
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------------------------------------------------------------------------ccaatatgctctttaatatctagttatctgcgatattgttactctctctttaaatcttatt-tctcgctactaacactgtttcacataaactattttatagACTTGCCTACTCAATGAAAAAAATGATGGCAGATAAAGCTTTG
upper sequence: AT4G29900.1 (Arabidopsis thaliana), 3'ss of exon 16
lower sequence: GLYMA17G06520.1 (Glycine max), 3'ss of exon 17
gtaagtctattgtcttctatatacatattttaatagcaattgctttggcctttagagttggaaagaatttagttatta-catggtcagagtcaaactttaaagaaaatgatggatctgctgtaaaattgaatagtctttttgtcactgatcttttctacttcttactg-gcagTCTTGCGTATTCCATGAGAAAAATGATGGCAGATAAAGCTTTG
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--------------------------------------------------------------------tagattgtcaatatggtc----tttaatatctacgatatttctctctctctctttaaatcttatt-tctctctactaacactgtttcacatcaactattttatagACTTGCCTACTCAATGAAAAAAATGATGGCAGATAAAGCTTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctgtaaaattgaatagtctttttgtcactgatcttttctacttcttactggcagTCTTGCGTATTCCATGAGAAAAATGATGGCAGATAAAGCTTTG
ttcttac putative branch site (score: 2)
tcttttctacttctta CT-rich tract
aaaattgaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtctattgtcttctatatacatattttaatagcaattgctttggcctttagagttggaaagaatttagttattacatggtcagagtcaaactttaaagaaaatgatggatctgctgtaaaattgaatagtctttttgtcactgatcttttctacttcttactggcagTCTTGCGTATTCCATGAGAAAAATGATGGCAGATAAAGCTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT