Sequence
atgc intronic sequence ATGC exonic sequence...ttactaatgtttggcgcatctctacaagcctcgagtcttggactgtacctggttggctcaatcctagtatacttctgtaatttaaatcttcatgttgcagGGATATCGAGTTCTTGTTGTGGAGCAGACAGAGACACCTGATCAGCTGGAAAAACGACGGAAAGAAACTGGTTCAAAGGATAAG
Basic information
species | Physcomitrella patens |
transcript | PP1S152_6V6.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S152_6V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 6
-------ttactaatgtttggcgcatctctacaagcctcgagtcttggactgtacctggttggctcaatcctagtatact-------tctgtaatt-----------------taaatcttcatgtt---gcagGGATATCGAGTTCTTGTTGTGGAGCAGACAGAGACACCTGATCAGCTGGAAAAACGACGGAAAGAAACTGGTTCAAAGGATAAG
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gtttgtctcacaaatgactccccccccccccccccccccccctcttttcatctcagatacagactaattacttgtctaacaagccaacctgtaactaggggggaggaacttactaagtttccatggttgagcagGGTTATCGAGTTCTTGTTGTAGAGCAGACTGATACACCTGAACAGCTGGAGCTTCGTCGCAAGGAGAAGGGCTCTAAAGATAAG
upper sequence: PP1S152_6V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 6
--------------------------ttactaatgtttggcgcatctctacaagcctcgagtcttggactgtacctggttggctcaat-cctagtatacttctgtaatt--taaatcttcatgttgcagGGATATCGAGTTCTTGTTGTGGAGCAGACAGAGACACCTGATCAGCTGGAAAAACGACGGAAAGAAACTGGTTCAAAGGATAAG
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gtttgtttccagaaatatagcaactccagttcaagcgtgatctatttcttgttacgtgtagagaaattacattcatggcaaatgctgtactttgggtagaaataaagttgattgaattgaatggaacagGGCTATCGGGTTTTAGTTGTCGAACAAACAGAAACACCTGATCAGCTGGAGCAACGCCGAAAAGAGACAGGTTCCAAGGATAAA
upper sequence: PP1S152_6V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: Vv07s0005g01370.t01 (Vitis vinifera), 3'ss of exon 6
----------------------ttactaatgtttggcgcatct-ctacaagcctc-gagtcttggactgtacctggttggctcaatcctagtatacttctgtaatttaaatcttc--atgttgcagGGATATCGAGTTCTTGTTGTGGAGCAGACAGAGACACCTGATCAGCTGGAAAAACGACGGAAAGAAACTGGTTCAAAGGATAAG
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gttgatcctattacatattttctatctcaaattagaattgttttccattggctttagagcacctctatttctttcatgaacccattttcatcaagaattcttactggagctccttggacagtgcagGGTTATCGTGTTCTTGTTGTAGAGCAAACAGAAACACCTGAGCAGCTTGAGCTTCGTCGCAAAGAGAAGGGTTCTAAGGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacctggttggctcaatcctagtatacttctgtaatttaaatcttcatgttgcagGGATATCGAGTTCTTGTTGTGGAGCAGACAGAGACACCTGATCAGCTGGAAAAACGACGGAAAGAAACTGGTTCAAAGGATAAG
tcttcat CT-rich tract
taatttaaatcttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttactaatgtttggcgcatctctacaagcctcgagtcttggactgtacctggttggctcaatcctagtatacttctgtaatttaaatcttcatgttgcagGGATATCGAGTTCTTGTTGTGGAGCAGACAGAGACACCTGATCAGCTGGAAAAACGACGGAAAGAAACTGGTTCAAAGGATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA