Sequence
atgc intronic sequence ATGC exonic sequencegtatgatgggtttttgttttattgccggctccaattcttcctctctctatatatatctttcagttgagaattcattttctcttttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G37160.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os12g07450.2 (Oryza sativa), 3'ss of exon 7
gtatgatgggtttttgttttattgccggctccaattcttcctctctctatata-tatctttcagttgagaattcattttctcttttg--accatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
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gtacttcctttgtcccaatagtagatggttct--ttattccttatagaacccactgattctgtattgcttattaaaataacactataaaaccttatttagGTTATTTGAGAGTGTTTGACTTTTCGAAGGAGCAACTAATATTTGGTGGGAAAAGTTATTATGGTGCACTATTGTGTTGCACATGGAG
upper sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 8
gtatgatgggtttttgttttattgccggctccaattcttcctctctctatatatatctttcagttgagaattcattttc------tcttttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
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gtatattt--tttttatccaactgcatcacattgttgtagttctttttttatttaattttc-gttacaaaattatcttcatgaatttattttacttcattcagGTTATTTACGAGTGTTTGATTACTTAAAAGAACAACTTATATGTGGTGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCTTGGAG
upper sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G20240.1 (Glycine max), 3'ss of exon 8
gtatgatgggtt-tttgttttattgccggctccaattcttcctctctctatatatatctttcagttgagaattcattttctcttttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
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gtatattttttaatccaactcatcac--attgtagttgttttttatttcatttttgtcacaaaattatc--ttcatgaatcaattttacttcattcagGTTATTTACGAGTATTTGATTACTTAAAAGAACAACTTATATGTGGTGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCTTGGAG
upper sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G36480.2 (Glycine max), 3'ss of exon 2
gtatgatgg-gtttttgttttattgccggctccaattcttcctctctctatatatatctttc---agttgagaattcattttctctt-ttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
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gtatattcttaatccaattccatcctcactatgtattatatctacttattttcatattctttcaaagataacatctgaaattattttacttactgcatccagGTTATTTACGAGTGTTTGATTACTCAAAAGAACAACTTATATGTGGCGGGAAAAGTTATTATGGTGCTTTGTTATGTTGTGCTTGGAG
upper sequence: AT2G37160.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 7
gtatgatgggtttttgttttattgccggctccaattcttcctctctctatatatatctttcagttgagaattcattttctcttttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
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gtatttcttgattttgcattttggggttgtcctgcttttttggtttgtacatgtaaatagcattgattaactgagatcaattgctga----atgcagGTTATCTGAGAGTGTTTGACTTCTCAAGAGAACAACTTATATGTGGTGGCAAAAGCTATTATGGTGCTCTATTATGTTGTGCTTGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctctatatatatctttcagttgagaattcattttctcttttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
ttttgac putative branch site (score: 3)
ttttctcttttgacc CT-rich tract
tatatatatctttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatgggtttttgttttattgccggctccaattcttcctctctctatatatatctttcagttgagaattcattttctcttttgaccatgtacagGTTATCTTCGAATTTTTGATTTTTCAACCCAAAAGCTAGTGTGTGGTGTAAAAAGTTATTATGGTGCTCTATTGTGTTGTGCTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG