Sequence
atgc intronic sequence ATGC exonic sequence...agaaaaaaaaacttaggtatttgattttattttatttctggtggtgataaagaaaagttgctaagcttgtttattttattgtgaatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC
Basic information
species | Glycine max |
transcript | GLYMA02G05000.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05000.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G17730.1 (Arabidopsis thaliana), 3'ss of exon 4
agaaaaaaaaacttaggtatttgattttatt-ttatttctggtggtgataaagaaaagttgctaagcttgtttattttattgtgaatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC
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-------------------gttagttctattgtcagtttgcttcgttttagttcattatgtcgaatcgagttctaattcgggttttgtctttctccttcagGATTTCCAGCTCGGTGAAACAGTTAGAAGCTTGCCTCATTGTCATCACATGTTTCACTTACCTTGCATAGACAATTGGCTCCTTAGACACGGTTCTTGCC
upper sequence: GLYMA02G05000.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G17730.2 (Arabidopsis thaliana), 3'ss of exon 4
agaaaaaaaaacttaggtatttgattttatt-ttatttctggtggtgataaagaaaagttgctaagcttgtttattttattgtgaatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC
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-------------------gttagttctattgtcagtttgcttcgttttagttcattatgtcgaatcgagttctaattcgggttttgtctttctccttcagGATTTCCAGCTCGGTGAAACAGTTAGAAGCTTGCCTCATTGTCATCACATGTTTCACTTACCTTGCATAGACAATTGGCTCCTTAGACACG---------
upper sequence: GLYMA02G05000.1 (Glycine max), 3'ss of exon 4
lower sequence: AT4G35840.1 (Arabidopsis thaliana), 3'ss of exon 4
-agaaaaaaaaacttaggtatttgattttattttatttctggtggtgataaagaaaagttgctaagcttgtttattttattgtgaatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC
| || | | | || ||| ||| || || ||| || | | || | ||||| | || ||||||||| ||||| ||||| || || | ||||| ||||| |||||||||||||| |||||| | |||||||| || || ||||| ||| ||| || ||||| |
gttttttgctcatttcagc-tcaaacgaaatcttaattccccaaatgcagaaccaaaaggtttagttcttgatcttcttttgtgtaactt----tttgcagGATTTTCAACTTGGTGAAACGGTGAGAAGCTTGCCACATTGTCATCACATGTTTCACTTGCCTTGCATAGACAATTGGCTCTTCAGGCACGGATCTTGTC
upper sequence: GLYMA02G05000.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0264g00020.t01 (Vitis vinifera), 3'ss of exon 4
----agaaaaaaaaacttaggtatttgattttattttatttctggtggtga------taaagaaaagttgctaagcttgtttattttattgtg-aatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC
|| | || | || | |||| || || | | | || || |||||| |||| || | || || || ||||||| ||||||||||||||||| ||||| | |||||||||| |||||||| || || |||||||| || ||||||||||||||||| | || ||||||||||
gtatagccataagttttcctctacataatttctccttcttataaataaataggctttcagtgatttgtatagaagcttatttaattgaaattggaacttctgcattttcagGACTTTCAGCTTGGAGAGACAGTCCGAAGTTTGCCCCATTGTCACCATATGTTTCACCTGCCATGCATTGATAAGTGGCTCCTTGGACACGGTTCTTGCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gataaagaaaagttgctaagcttgtttattttattgtgaatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC
tttttgc CT-rich tract
tttattttattgtgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaaaaaaaacttaggtatttgattttattttatttctggtggtgataaagaaaagttgctaagcttgtttattttattgtgaatttttgcatttgcagGACTTTCAGCTTGGGGAGACTGGTAGAAGTTTGCCTCATTGTCATCACATTTTTCACCTACCTTGCATTGATAAGTGGCTGATCAAGCATGGTTCTTGCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT