Sequence
atgc intronic sequence ATGC exonic sequence...gttcactcatttaaatactaattaatttcagttacaaatttcgatcaggtgatagacaaggagtgcatcaattaatccacttaactctgatttgttatagGTTGCTAGCTGGGGTGGTGACTTGTTGGATCGCGGGATTCTAACAGTTTCTCTTGCCCCAAGAGATAACCATGAAGCTCAAGTTCAATTTGCTCTAGAGC
Basic information
species | Glycine max |
transcript | GLYMA01G35220.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G35220.5 (Glycine max), 3'ss of exon 4
lower sequence: AT1G31850.2 (Arabidopsis thaliana), 3'ss of exon 3
gttcactcatttaaatactaattaatttcagttacaaatttcgatcaggtgatagacaaggagtgcatcaattaatccacttaactctgatttgttatagGTTGCTAGCTGGGGTGGTGACTTGTTGGATCGCGGGATTCTAACAGTTTCTCTTGCCCCAAGAGATAACCATGAAGCTCAAGTTCAATTTGCTCTAGAGC
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gttagtctctcttca-actactcaagttctctaatcagttctgatcggtcgagg--------------ttataattttccgtggtt----tctttggtagGTTGCGAGCTGGGGAGGCGATCTTTTGGACCGTGGGATACTATCACTCTCTCTTGCTCCAAGAGATAACCATGAAGCTCAGGTTCAATTTGCTCTTGAAC
upper sequence: GLYMA01G35220.5 (Glycine max), 3'ss of exon 4
lower sequence: Vv02s0033g01120.t01 (Vitis vinifera), 3'ss of exon 4
----------------------------------------------------------------gttcactcatttaa-----atactaattaatttcagttacaaatttcgatcaggtg---atagacaaggagtgcatcaattaatccacttaactctgatttgttatagGTTGCTAGCTGGGGTGGTGACTTGTTGGATCGCGGGATTCTAACAGTTTCTCTTGCCCCAAGAGATAACCATGAAGCTCAAGTTCAATTTGCTCTAGAGC
|| | |||| | || || ||| | ||| | || || | ||| | || ||| ||| || ||| | | | || |||||||| |||||||| ||||| || || ||||| || || |||||| | ||| | || ||||||||||| ||||| |||||||| |||||||| | || |
gtgagccctgattcatactattgtttcttcacggagttgatcatatgaaccaattcgataacctattaatctatttgatgtttattctggaagctttgatttatgaccatcacctttgtatatgttcccaaaaattgtgtcacttagtctgtgtaattgctttat-ttctagGTTGCGAGCTGGGGAGGTGATTTATTAGATCGTGGCATACTAACAATGTCTTTGGCTCCAAGAGATAATCATGAGGCTCAAGTCCAATTTGCATTGGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caggtgatagacaaggagtgcatcaattaatccacttaactctgatttgttatagGTTGCTAGCTGGGGTGGTGACTTGTTGGATCGCGGGATTCTAACAGTTTCTCTTGCCCCAAGAGATAACCATGAAGCTCAAGTTCAATTTGCTCTAGAGC
atcaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcactcatttaaatactaattaatttcagttacaaatttcgatcaggtgatagacaaggagtgcatcaattaatccacttaactctgatttgttatagGTTGCTAGCTGGGGTGGTGACTTGTTGGATCGCGGGATTCTAACAGTTTCTCTTGCCCCAAGAGATAACCATGAAGCTCAAGTTCAATTTGCTCTAGAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA