Sequence
atgc intronic sequence ATGC exonic sequencegttagttagttcatattctctagatataataaaaaaacattcaatagttgatagtgttttcatatatttatgcttctcttgacttattttagGATCAAGATTCCTTATCCACTTCAATGGGGAGCACCTAGCTTTGATGCTGGTCATGCTTTTGCTATGATGGCCGCTGTTTTAGTCTCACTCATTGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G34190.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G34190.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA06G06840.1 (Glycine max), 3'ss of exon 7
---------------------gttagttagttcatattctctagatataata-aaaaaacattcaatagttgatagtgttttcatat-atttatgcttctcttgacttattttagGATCAAGATTCCTTATCCACTTCAATGGGGAGCACCTAGCTTTGATGCTGGTCATGCTTTTGCTATGATGGCCGCTGTTTTAGTCTCACTCATTGAG
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gttggtacagaaaaagcatctgttaaaatagttaaatgttataatcataattcaggtgccaggaagcaagcacttttgagctgttgccaatgactcttctacatgttgcctacagGATAAAGATTCCATACCCTCTTGAGTGGGGTGCTCCTACATTTGATGCTGGTCATGCTTTTGGAATGATGGCTGCTGTTTTAGTCTCCTTAATTGAG
upper sequence: AT2G34190.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA04G06750.1 (Glycine max), 3'ss of exon 7
----------------gttagttagttcatattctctagatataataaaaaaacattcaatagttgatagtgttttcatatatttatgctt-ctcttga-----cttattttagGATCAAGATTCCTTATCCACTTCAATGGGGAGCACCTAGCTTTGATGCTGGTCATGCTTTTGCTATGATGGCCGCTGTTTTAGTCTCACTCATTGAG
| |||| | || | |||||| | || || | | | || || | | || | ||||||| | | ||||| |||||||| || || ||| | ||||| || |||| ||||||||||||||||| |||| |||||||| |||||||||||||| | || |||
gttggtacaaaaaagcatctgttaaaatagttttaaatgttataatcataattcaggcgcaggaagcaagcacttagagctgttgccaatgactcttgaacatgttgcctacagGATAAAGATTCCATACCCTCTTGAGTGGGGTGCTCCTACATTTGATGCTGGTCATGCCTTTGGAATGATGGCTGCTGTTTTAGTCTCCTTAATAGAG
upper sequence: AT2G34190.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G12360.1 (Glycine max), 3'ss of exon 9
----------------------------------gttagttagtt---catattctctagatataataaaaaaacattcaata--------gttgatagtgt-tttcatatatttatgcttctcttgacttattt----tagGATCAAGATTCCTTATCCACTTCAATGGGGAGCACCTAGCTTTGATGCTGGTCATGCTTTTGCTATGATGGCCGCTGTTTTAGTCTCACTCATTGAG
|| || | || || || | | | | |||| || | | | | | | | | ||| || || |||| | || | ||| ||||| |||||||| || || ||| | ||||| || |||| ||||||||||| |||||||||| |||||||| ||||| ||||||||| | |||||
gttggtactaccaagagattctttgtagttgaatatttgtaaaacacacacatacttttactgttaaaaaataattacctacatgaataaagcaaagaatatgtttgatttagttattgactcttgaacatgtttgtggcagGATAAAGATTCCATACCCTCTTGAGTGGGGTGCTCCTACATTTGATGCTGGCCATGCTTTTGGAATGATGGCTGCTGTGTTAGTCTCATTAGTTGAG
upper sequence: AT2G34190.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv10s0003g01460.t01 (Vitis vinifera), 3'ss of exon 7
-gttagttagttcatattctctagatataataaaaaaacattcaatagttgatagtgttttcatatatttatgct--tctcttgacttattt-----tagGATCAAGATTCCTTATCCACTTCAATGGGGAGCACCTAGCTTTGATGCTGGTCATGCTTTTGCTATGATGGCCGCTGTTTTAGTCTCACTCATTGAG
| | | | | || | | | | | ||||| | | | ||| |||| || || | || | ||| |||||| ||||| || ||||| ||||| ||||| ||||| | |||||||||||||||||||||| |||||||| ||||| | ||||| | ||||||
gggttcctcctcctggaactgtgtacagagagattgtacatttttcaatcaaagagatttcttagtattgcctctaatccttggaatcattgctatgtagGATAAAGATACCATATCCTCTTCAGTGGGGCGCACCCACTTTTGATGCTGGTCATGCTTTTGGAATGATGGCTGCTGTCCTGGTCTCCTTGATTGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattcaatagttgatagtgttttcatatatttatgcttctcttgacttattttagGATCAAGATTCCTTATCCACTTCAATGGGGAGCACCTAGCTTTGATGCTGGTCATGCTTTTGCTATGATGGCCGCTGTTTTAGTCTCACTCATTGAG
tcttgac putative branch site (score: 3)
cttatttt CT-rich tract
atagtgttttcatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttagttcatattctctagatataataaaaaaacattcaatagttgatagtgttttcatatatttatgcttctcttgacttattttagGATCAAGATTCCTTATCCACTTCAATGGGGAGCACCTAGCTTTGATGCTGGTCATGCTTTTGCTATGATGGCCGCTGTTTTAGTCTCACTCATTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT