Sequence
atgc intronic sequence ATGC exonic sequence...atataaatattaacaagagaggaggaaccgttctgattatttgtagtgattcattattctgattataggcagatttttaaatgtgaacttgccaaaacagGAAGTGGAGTTGCAGGAATTGTGCTCCCTGAATCAGAAGAGAAGGTGGTTGCAATTAAGAAGGGTGATGCTTTGGCACTCCCTTTTGGTGTGATAACCTG
Basic information
species | Glycine max |
transcript | GLYMA12G07180.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G07180.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv12s0059g02390.t01 (Vitis vinifera), 3'ss of exon 1
---atataaatattaacaagagaggaggaaccgttctgattatttgtagtgattc-attattctgattataggcagatttttaaatgtgaacttgccaaaacagGAAGTGGAGTTGCAGGAATTGTGCTCCCTGAATCAGAAGAGAAGGTGGTTGCAATTAAGAAGGGTGATGCTTTGGCACTCCCTTTTGGTGTGATAACCTG
| | | || | | || ||| | ||| || | | | | | || |||| || | | | | || || | ||||||||| |||||||||||||| || ||||| ||||| ||||||||| ||||||| ||||| || || || | || || ||||| ||||| |||| ||
ttcttccataatttcagagattagatataactttaaagatcatctaatcttacactagagttttgatccctttttgactgatgattctggtattttc----tagGAAGTGGGGTTGCAGGAATTGTCCTTCCTGAGTCAGAGGAGAAGGTGATTGCAATCAAGAAAGGCGACGCCATCGCCCTTCCTTTCGGTGTTGTAACATG
upper sequence: GLYMA12G07180.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv06s0004g04060.t01 (Vitis vinifera), 3'ss of exon 1
atataaatat-taacaagagaggaggaaccgttctgattatttgtag---tgattcattattctgattataggcagatttttaaatgtgaa-cttgccaaaac-agGAAGTGGAGTTGCAGGAATTGTGCTCCCTGAATCAGAAGAGAAGGTGGTTGCAATTAAGAAGGGTGATGCTTTGGCACTCCCTTTTGGTGTGATAACCTG
||| | ||| | | |||| || ||| | | |||| | || | | | | | ||| |||| ||||| | ||||| ||| ||||| |||||||| || ||||||||||| |||||||| || | ||||||||||| ||||| | || || || |||||||| | || ||
---taattgcataattcataactacaaacc---ctaatttcctacacagttgatattggtctttggtcaaatttacttatttggctgtggttcttgctttctccagGAAATGGTGTTGCTGGAATTGTTCTTCCTGAATCAGAGGAGAAGGTAGTCCCTATTAAGAAGGGCGATGCACTTGCTCTTCCCTTTGGTGTTGTTACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgattcattattctgattataggcagatttttaaatgtgaacttgccaaaacagGAAGTGGAGTTGCAGGAATTGTGCTCCCTGAATCAGAAGAGAAGGTGGTTGCAATTAAGAAGGGTGATGCTTTGGCACTCCCTTTTGGTGTGATAACCTG
ttctgat putative branch site (score: 3)
attattctgattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atataaatattaacaagagaggaggaaccgttctgattatttgtagtgattcattattctgattataggcagatttttaaatgtgaacttgccaaaacagGAAGTGGAGTTGCAGGAATTGTGCTCCCTGAATCAGAAGAGAAGGTGGTTGCAATTAAGAAGGGTGATGCTTTGGCACTCCCTTTTGGTGTGATAACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - gaggagg
- - - - - - - - - - - - - - - - - - - - -tgtagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtgaac