Sequence
atgc intronic sequence ATGC exonic sequence...ttcttctctaaagtgtctatagataaatatgttcaaatagaatcttaagattattatcattgtttttggacactgacatatcaaaatcttattgtacaggGAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGGTGGTGTATCGGAAAGCCCAAATAATTGATCCGGATTGTAACAAGGCCTG
Basic information
species | Glycine max |
transcript | GLYMA18G38050.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G38050.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv07s0005g05680.t01 (Vitis vinifera), 3'ss of exon 3
----------ttcttctctaaagtgtctatagataaatatgttcaaatagaatcttaagattattatcattgtttttggacactgacatatcaaaatcttattgtacaggGAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGGTGGTGTATCGGAAAGCCCAAATAATTGATCCGGATTGTAACAAGGCCTG
|| ||| || || | | | || || ||| | || || | | ||| ||| | || ||| | ||||| |||||| || |||| |||||||| |||||||| ||||| ||| ||||||||||||||| |||||||||||| || ||||||||| |||||||| |
cttgatagctttattcatggaaatgaacaaaaaccaaagagtgcaa-caaaactatataacaaatat-attatacttaa----cagcattttgg---cttatatcacagGGTAATTTGGGTTGGGCCTACATGCAAAAATCCAACTATATGGCAGCTGAGGTGGTGTATAAGAAAGCCCAAATGATAGATCCGGATGCGAACAAGGCTT-Mapped 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|51341464|gb|CO982781.1|CO982781EST: TGGCAAGAAGTTCCAAGTTTCTATCAAACAAGAAACTTCAAGATTACTGG GAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGG
genomic: TGGCAAGAAGTTCCAAGTTTCTATCAAACAAGAAACTTCAAGATTACTGGtatttgatct ... attgtacaggGAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGG
EST:
gi|9203956|gb|BE330180.1|BE330180EST: TGGCAAGAAGTTCCAAGTTTCTATCAAACAAGAAACTTCAAGATTACTGG GAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGG
genomic: TGGCAAGAAGTTCCAAGTTTCTATCAAACAAGAAACTTCAAGATTACTGGtatttgatct ... attgtacaggGAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagattattatcattgtttttggacactgacatatcaaaatcttattgtacaggGAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGGTGGTGTATCGGAAAGCCCAAATAATTGATCCGGATTGTAACAAGGCCTG
cactgac putative branch site (score: 2)
tcttatt putative PPT
ttattatcattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcttctctaaagtgtctatagataaatatgttcaaatagaatcttaagattattatcattgtttttggacactgacatatcaaaatcttattgtacaggGAAACCTGGGCTGGGCCTATATGCAAAAGATGAACTACATGATGGCTGAGGTGGTGTATCGGAAAGCCCAAATAATTGATCCGGATTGTAACAAGGCCTG
- - - - - - gtgtcta
- - - - - - - - - - - - - - - - - aaatagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaaatc