Sequence
atgc intronic sequence ATGC exonic sequence...tatgatgttaatttctgtcactgaacaaagttatgtgcttcaatgatattaggtgtatgatgtcacccctttcatggaggatcatcccggaggtgatgagGTTTTGTTATCTGCAACAG
Basic information
species | Glycine max |
transcript | GLYMA04G41010.3 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G41010.3 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G074169_T01 (Zea mays), 3'ss of exon 1
----------------------------------tatgatgttaa---tttctgtcactg-------aacaaa-gttatgtgcttcaatg---atattaggtgtatgatgtcacccctttcatggaggatcatcccggaggtgatgagGTTTTGTTATCTGCAACAG
|| || | ||||||||| | || | ||||| | ||| || || | |||||||||||||||| ||||| ||||| || ||||| || || |||||||||||| || ||| ||| |
tgtttattttattaatatactcataaaaatggaataaatcattgaaattttctgtcatttgttttccaatatgtgttatctctttctattaacatttcagGTGTATGATGTCACTCCTTTTATGGATGAGCATCCTGGTGGAGATGAGGTTTTGCTAGCTGTAACTG
upper sequence: GLYMA04G41010.3 (Glycine max), 3'ss of exon 2
lower sequence: AT5G53560.1 (Arabidopsis thaliana), 3'ss of exon 2
----------------------------------------------tatgatgttaatttctgtcactgaacaaagttatgtgctt-caatgatatt-aggtgtatgatgtcacccctttcatggaggatcatcccggaggtgatgagGTTTTGTTATCTGCAACAG
| ||| | ||| ||| | | | |||| || | | || ||||||||||||| || || |||||||| |||||||| ||||| ||||| || ||||| || ||||||
agcccctcgtagatttagttgattctatgttaattcacactagagaaacagagtttgtgtctactacttggttatgatctgtgattgttgcgttctttagGTGTATGATGTGACTCCATTCATGGATGATCATCCTGGAGGCGATGAAGTCTTGTTGTCCTCAACAG
upper sequence: GLYMA04G41010.3 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0098g01230.t01 (Vitis vinifera), 3'ss of exon 2
-------------------------------------------tatgatgttaatttctgtcactgaacaaagtt-----atgtgcttcaatgatattaggtgtatgatgtcacccctttcatggaggatcatcccggaggtgatgagGTTTTGTTATCTGCAACAG
||| | || || | | | ||| || || | | || || || ||||||||||||| || || |||||||| |||||||| ||||||||||| |||||| |||| ||||| |
cctgcaattttgaatgtgacatagttttggatgttggtgactttattctattctatttaatttgttgataaaattttaaaatctccatctattgtaacagGTGTATGATGTAACTCCGTTCATGGATGATCATCCTGGAGGTGATGAAGTTTTGCTATCAGCAACTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|14999966|gb|BI320780.1|BI320780EST: TGGCAAAGCACGACCAGACCAAGGATTGCTGGCTCATCATTTCTGGCAAG GTTTTGTTATCTGCAACAG
genomic: TGGCAAAGCACGACCAGACCAAGGATTGCTGGCTCATCATTTCTGGCAAGgtctgctttt ... aggtgatgagGTTTTGTTATCTGCAACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgatgttaatttctgtcactgaacaaagttatgtgcttcaatgatattaggtgtatgatgtcacccctttcatggaggatcatcccggaggtgatgagGTTTTGTTATCTGCAACAG
- tgatgtt
- - - - - - - ctgtcac
- - - - - - - - - - - - - - - - - -tgcttca
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggagga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatccc