Sequence
atgc intronic sequence ATGC exonic sequencegtaagaatgctttaccttgttaatagcgcctttccctgttttcaagttattttgattttgaaagaataaagccagtttgttgatctcaagggactttgttgaggtcggacgtagtttatggtaaatagatgttaatgagtatttcggtccactatacctatgaatcagGCTAAACTTGCTGAGAAACTTCCTCATATACAGTCCCTCTGTATTCATGAGATGATTACAAGAGCTTTCAAGCATCTTCTTAGGGCGGTTATTGCATCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G15290.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA07G03250.1 (Glycine max), 3'ss of exon 14
gtaagaatgctttaccttgttaatagcgcctttccctgttttcaagttattttgattttgaaagaataaagccagtttgttgatctcaagggactttgttgaggtcggacgtagtttatggtaaatagatgttaatgagtatttcggtccactatacctatgaatcagGCTAAACTTGCTGAGAAACTTCCTCATATACAGTCCCTCTGTATTCATGAGATGATTACAAGAGCTTTCAAGCATCTTCTTAGGGCGGTTATTGCATCTG
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--------------------------------------------------------------gtagtctaaataccttgctagt-tgaactagtgtgaatcaggttaaagctagttggtaatata-gtttgcttttgttggttgtaatttcttgag----tgaatcagGTTAAACTTGCGGAGAATCTTCCACACATACAATCCCTTTGTATTCATGAGATGATCACTCGAGCTTTCAAGCATCTACTTAAAGCAGTTACTGCCTCTG
upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA08G22850.1 (Glycine max), 3'ss of exon 12
gtaagaatgctttaccttgttaatagcgcctttccctgttttcaagttattttgattttgaaagaataaagccagtttgttgatctcaagggactttgttgaggtcggacgtagtttatggtaaatagatgttaatgagtatttcggtccactatacctatgaatcagGCTAAACTTGCTGAGAAACTTCCTCATATACAGTCCCTCTGTATTCATGAGATGATTACAAGAGCTTTCAAGCATCTTCTTAGGGCGGTTATTGCATCTG
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--------------------------------------------------------gttgtcgaaatac--cttgctagttgaactactgtgaatc-----aggttaaagctatttggtaatata-gtttgcttttgttggttctaatttcttgtg----tgaatcagGTTAAACTTGCAGAGAATCTGCCACACATACAATCCCTTTGTATTCATGAGATGATCACTCGAGCTTTCAAGCATCTACTTAAAGCAGTTATTGCCTCTG
upper sequence: AT1G15290.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv09s0002g07530.t01 (Vitis vinifera), 3'ss of exon 13
gtaagaatgctttaccttgttaatagcgcctttccctgttttcaagttattttgattttgaaagaataaagccagtttgttgatctcaagggactttgttgaggtcggacgtagtttatggtaaatagatgttaatgagtatttcggtcc--actatacct-atgaatcagGCTAAACTTGCTGAGAAACTTCCTCATATACAGTCCCTCTGTATTCATGAGATGATTACAAGAGCTTTCAAGCATCTTCTTAGGGCGGTTATTGCATCTG
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----------------------------------------------------------------------gttaactcatc-atatacttcacttctgtaaaggcttttagttatttatatgtgaaagtcaagaatttattgtttgattctaatcactcttgataaaccagGTGGAACTTGCTGAGAAACTTCCTCACATACAGTCACTCTGTATTCATGAGATGGTTACTCGAGCATTCAAGCATGTACTCAAAGCAGTTGTTCGTTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttatggtaaatagatgttaatgagtatttcggtccactatacctatgaatcagGCTAAACTTGCTGAGAAACTTCCTCATATACAGTCCCTCTGTATTCATGAGATGATTACAAGAGCTTTCAAGCATCTTCTTAGGGCGGTTATTGCATCTG
tgttaat putative branch site (score: 3)
taaatagatgttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaatgctttaccttgttaatagcgcctttccctgttttcaagttattttgattttgaaagaataaagccagtttgttgatctcaagggactttgttgaggtcggacgtagtttatggtaaatagatgttaatgagtatttcggtccactatacctatgaatcagGCTAAACTTGCTGAGAAACTTCCTCATATACAGTCCCTCTGTATTCATGAGATGATTACAAGAGCTTTCAAGCATCTTCTTAGGGCGGTTATTGCATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT