Sequence
atgc intronic sequence ATGC exonic sequence...caaaggttttttttctttttataatttttgttttgaaattccaaactgtgacaatatttgaggctaataaggtttaatggattgtttgttatatttgcagTTGGCACTTTGTTGGGGGCTATGACTGGAGCCTTGATAGGCCAAGAGACAGAGAGTGGTTTCATTCGAGGGGCCGCTATAGGTGCCATATCAGGAGCTGT
Basic information
species | Glycine max |
transcript | GLYMA02G05000.1 |
intron # | 1 |
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 1
lower sequence: AT2G17730.2 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------------------------------------caaaggttttttttctttttataatttttgtt------ttgaaatt-ccaaactgtgacaatatttgaggctaataaggtttaatggattgtttgttat---atttgcagTTGGCACTTTGTTGGGGGCTATGACTGGAGCCTTGATAGGCCAAGAGACAGAGAGTGGTTTCATTCGAGGGGCCGCTATAGGTGCCATATCAGGAGCTGT
|| ||| | |||| | || ||| ||||| | | | | | || |||| || | | | | || || | | || | |||| ||||| ||| | ||||| | || ||||| |||||||| ||||| || ||||||||||||||| |||| || || || || ||||| || ||||||||
gtttgttttcgtttcttgtaactcttcttgagattgtctgtagttctaaaactcgattttggatctaattgttgctcatcttcgattggattgagttggatcattgaattgatttgattattagaaagtttgtaact--tggagctaagaaagctgattcctttttcatgttcagTGGGCACATTGCTAGGGGCACTTACAGGAGCTTTGATAGGTCAAGAAACTGAGAGTGGTTTCATTAGAGGAGCAGCAATTGGAGCCATTTCGGGAGCTGT
upper sequence: GLYMA02G05000.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0264g00020.t01 (Vitis vinifera), 3'ss of exon 1
caaaggtttttt-ttctttttataatttttgttttgaaattcca--aactgtgacaatatttgaggctaataaggtttaatggattgtttgttatatttgcagTTGGCACTTTGTTGGGGGCTATGACTGGAGCCTTGATAGGCCAAGAGACAGAGAGTGGTTTCATTCGAGGGGCCGCTATAGGTGCCATATCAGGAGCTGT
| | | ||| | | ||||||| ||| | | || || || | | || |||| || | |||||||| || || ||||||| || ||||||||||| ||||||||||||||||||||||| || || || ||||||| ||| | || || ||||||||||||||
tataaatcaccagttcccccaaaaggaagaacaccttaattccaggaaccatatattttcttagaactgtcaa---taattgaattggcctttgtgtttgcagTGGGTACCATGTTGGGAGCCATGACTGGAGCTTTGATAGGCCAAGAGACAGAGAGCGGGTTTGTTAGAGGGGCTGCTGTTGGAGCAATATCAGGAGCTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtgacaatatttgaggctaataaggtttaatggattgtttgttatatttgcagTTGGCACTTTGTTGGGGGCTATGACTGGAGCCTTGATAGGCCAAGAGACAGAGAGTGGTTTCATTCGAGGGGCCGCTATAGGTGCCATATCAGGAGCTGT
attgtttgttatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaaggttttttttctttttataatttttgttttgaaattccaaactgtgacaatatttgaggctaataaggtttaatggattgtttgttatatttgcagTTGGCACTTTGTTGGGGGCTATGACTGGAGCCTTGATAGGCCAAGAGACAGAGAGTGGTTTCATTCGAGGGGCCGCTATAGGTGCCATATCAGGAGCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT