Sequence
atgc intronic sequence ATGC exonic sequence...tgttattattgttctaatgctatcatttaatattcaaatatctttcattttgtatgtttgggaggatgcttccttaatcatatctaaatcttaactgcagGTAGTTGAAGTTTTGACTGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTCTCTGATATTCTTCATAATAGTA
Basic information
species | Glycine max |
transcript | GLYMA16G15820.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G15820.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------tgttattattgttctaatgctatcatttaatattcaaata-------tctttcattttgtatgtttgggaggatgcttccttaatcatatctaaat-cttaact--gcagGTAGTTGAAGTTTTGACTGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTCTCTGATATTCTTCATAATAGTA
| | || | || | | | || || ||| || | || || || || | | | | || | |||| | | ||||| | ||||| |||||||||||||| || ||| |||| || ||||| || | |||||||| ||| |||| || || |||||||| |||||||||||||||||||| |
gtacaatatgttctgacttatatatttcagtacatttagttggttttttctagacaccacaaaaaatttgaacagaactactcgttaataaaatagatattcatatgcctcttcctacttatatatgtgtacttaattccacagGTTGTTGAAGTTTTGACGGAGTCCCTGACTCTAAAAGAGACATCAATTCCAACCAAAGTTGCTAGACTCATGCTTGTGTCTGATATTCTTCATAATAGCA
upper sequence: GLYMA16G15820.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 13
tgttattattgttctaatgctatcatttaatattcaaatatctttcattttgtatgtttgggaggatgcttccttaatcatatctaaatctta-actgcagGTAGTTGAAGTTTTGACTGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTCTCTGATATTCTTCATAATAGTA
| |||||| || || | | || | | || | | || ||| | | | ||| | |||| | ||||| ||||||| ||| | || ||||| || |||||||||||||| ||||| ||||||||| |||||||||| ||||||||||||||| ||||||| ||||| |
ttaaattatt-ttttagaattctgtttccaactgaaagaaagagaaaaaaaaaatcttttgaatactttaaatgcttatatagttctctcttgcattgcagATAGTTGAGGTTCTCACAGAATCTTTAACACTTAAAGAAACACCTATACCAACTAAAGTTGCAAGGCTCATGCTTGTCTCTGATGTTCTTCACAATAGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttgtatgtttgggaggatgcttccttaatcatatctaaatcttaactgcagGTAGTTGAAGTTTTGACTGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTCTCTGATATTCTTCATAATAGTA
tcttaac putative branch site (score: 2)
ttaatcatatctaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgttattattgttctaatgctatcatttaatattcaaatatctttcattttgtatgtttgggaggatgcttccttaatcatatctaaatcttaactgcagGTAGTTGAAGTTTTGACTGAATCCTTGACACTTAAAGAAACCCCTATTCCAACTAAAATTGCAAGGCTTATGCTTGTCTCTGATATTCTTCATAATAGTA
- - - - - - - - -tgctatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gtttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggatgct