Sequence
atgc intronic sequence ATGC exonic sequence...tttacatgtgcatgtatgaaattacaaattcttggtcttaatacaaaattccttagggaatatatatgctgtagatatttgtcattctcattcatccaagAACTTGTTATTGCTTACAGATTGAAATGAACGTAGCATGGCAACAGGGAAATCTGAGAAAATTCTGCCAAGAGAAAGGAATTCATGTGAGTGCATGGTCC
Basic information
species | Glycine max |
transcript | GLYMA16G34580.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G34580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv18s0001g09570.t01 (Vitis vinifera), 3'ss of exon 4
tttacatgtgcatgtatgaaattacaaattcttggtcttaatacaaaattccttagggaatatatatgctgtagatatttgtcattctcattcatccaagAACTTGTTATTGCTTACAGATTGAAATGAACGTAGCATGGCAACAGGGAAATCTGAGAAAATTCTGCCAAGAGAAAGGAATTCATGTGAGTGCATGGTCC-------------------
|| | | ||| | | | | ||| || | | | || ||| | |||| | ||| || ||| | |||||||||| || ||||||||||| || |||||| | || ||| |||||| || ||||||||||||||||||||
----------------------------------gtttacaaacaggcgtgttctgtgg-cataaatataattggcagaggtagttcatggct-tgatgaaactgaatgttgttt-cagGTGGAAATGAACGCAGTATGGCAACAGGTGAAACTGAGAGAGTTTTGCAGAGAGAAGGGGATTCATGTGAGTGCATGGTCTCCATTGGGAGCAAATGGAG
upper sequence: GLYMA16G34580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0077g02180.t01 (Vitis vinifera), 3'ss of exon 3
tttacatgtgcatgtatgaaattacaaattcttggtcttaatacaaaattccttagggaatatatatgctgtagatatttgtcattctcattcatccaagAACTTGTTATTGCTTACAGATTGAAATGAACGTAGCATGGCAACAGGGAAATCTGAGAAAATTCTGCCAAGAGAAAGGAATTCATGTGAGTGCATGGTCC-------------------
||| | | || | | ||| || || || | || | || || | | ||| || ||| | |||||||||| |||||||||||||| || |||||| | || ||| |||||| || ||||||||||||||||||||
------------------------------------gttacgaacaggcatgttctgtagcataattgggagaggtagtccatgg-cttgatgatgatgaaattgaatgttgttt-cagGTGGAAATGAACGCAGCATGGCAACAGGTGAAACTGAGAGAGTTTTGCAGAGAGAAGGGGATTCATGTGAGTGCATGGTCTCCATTGGGAGCAAATGGAG
upper sequence: GLYMA16G34580.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv05s0077g02150.t01 (Vitis vinifera), 3'ss of exon 2
tttacatgtgcatgtatgaaattacaaattcttggtcttaatacaaaattccttagggaatatatatgctgtagatatttgtcattctcattcatccaagAACTTGTTATTGCTTACAGATTGAAATGAACGTAGCATGGCAACAGGGAAATCTGAGAAAATTCTGCCAAGAGAAAGGAATTCATGTGAGTGCATGGTCC-------------------
|| |||| ||| | | ||| | || || | |||| || || || | || ||| | |||||||||| |||||||||||||| || |||||| | || ||| ||||| || ||||||||||||||||||||
----------------------------------gtattaaaacagggggtgtgccgaggcataataggcagagctagt--tcatga--gttgatgatgaaattgaacgcgtgtttcagGTGGAAATGAACGCAGCATGGCAACAGGCGAAACTGAGAGAGTTTTGCAGGGAGAAGGGGATTCATGTGAGTGCATGGTCTCCCCTGGGAGCAAACGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattccttagggaatatatatgctgtagatatttgtcattctcattcatccaagAACTTGTTATTGCTTACAGATTGAAATGAACGTAGCATGGCAACAGGGAAATCTGAGAAAATTCTGCCAAGAGAAAGGAATTCATGTGAGTGCATGGTCC
ttctcattc CT-rich tract
aatatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttacatgtgcatgtatgaaattacaaattcttggtcttaatacaaaattccttagggaatatatatgctgtagatatttgtcattctcattcatccaagAACTTGTTATTGCTTACAGATTGAAATGAACGTAGCATGGCAACAGGGAAATCTGAGAAAATTCTGCCAAGAGAAAGGAATTCATGTGAGTGCATGGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- tacatgt
- - - - -gcatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgta