Sequence
atgc intronic sequence ATGC exonic sequence...ttctgtctgactgagttaatattgatattttcattgtacatgaactgaagctacaaagatagttccaattacaatctcaggaatttgtgttctattgcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT
Basic information
species | Glycine max |
transcript | GLYMA19G30540.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G30540.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G12390.1 (Arabidopsis thaliana), 3'ss of exon 2
ttctgtctgactgagttaatattgatattt-tcattgtacatgaac-tgaagctacaaagatagttccaattacaatctcaggaatttgtg-ttctattgcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT
| || | || |||| | | | | ||||| || | || || | || | ||| | ||| ||| ||| || | |||||||||| || || ||| |||| ||| || || | ||||||||| |||||||||||||| || ||||| || ||||| |||||||| |||| |||||
--ttttcaaataatctttgcgttgacttgtgttgatagacatgtttgtggaact-taatgttatcatctattttattcttgttgattggtgattggaaaacagGACTAGATGGAGAGGCAGGAGGTAAGTCAAAACAAAGCAGAAGTGAGAAGAAGAGTCGCAAAGCCATGCTCAAGCTTGGCATGAAACCCATCACTGGTGT
upper sequence: GLYMA19G30540.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv08s0040g00600.t01 (Vitis vinifera), 3'ss of exon 2
ttctgtctgactgagttaatattgatattttcattgtacatgaactgaagctacaaagatagttccaatt----acaatctcaggaatttgtgttctatt-gcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT---
| | ||| | | | | | | |||||| || |||| | | | |||| | | | | |||| | || ||||||| ||| ||||| | ||||||||| ||||||| |||||||||||||||| ||||||||||||| | |||||||||||||| | | |||||||
-----attattcaaattactgtacaatctctggattcttatgaacaatgagtagaaagttgggtataattctttgctcttctaagtttttggatatgatgagcagGAC---AAGATGATGGAAGTGGTAGGTCAAAGCAGAGCAGAAGTGAAAAGAAGTCTCGCAAGGCAATGTTGAAACTTGGAATGAAGACAATTCCAGGTGTCAG
upper sequence: GLYMA19G30540.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0067g00710.t01 (Vitis vinifera), 3'ss of exon 2
---ttctgtctgactgagttaatattgatattttcattgtacatgaactgaagctacaaag-atagttccaattacaatctcaggaatttgtgttctattgcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT
|| ||| | | ||| || || | || | || | ||| || | | | | | || ||||||| | || || | ||| ||||| ||||||||| ||||||| | | |||||||||||||| |||||||||||| | || |||||||||||||| | ||||
gaattatgttttaaggaggaaactgtgtgctgaccaaaactgcttggttgttcatttaaatcatggcttattatgccagctttatt-cttgtgttaagcagGAGAACAGGGAGGAGATGCTAGTGGTAGGTCAAAGCAGAGCCGTAGTGAAAAGAAGAGCCGCAAGGCAATGTTGAAGCTTGGAATGAAACCCATTCCAGG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagctacaaagatagttccaattacaatctcaggaatttgtgttctattgcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT
ttctatt CT-rich tract
aattacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctgtctgactgagttaatattgatattttcattgtacatgaactgaagctacaaagatagttccaattacaatctcaggaatttgtgttctattgcagGACTAGAAGGTGATGCATCTGGTAGGTCGAAGCAGACCAGAAGTGAAAAGAAGAGTCGCAAGGCAATGCTTAAACTTGGAATGAAACCTGTCACAGGTGT
ttctgtc
- - - - - ctgagtt
- - - - - - - - - - - - - - - - - - - catgaac
- - - - - - - - - - - - - - - - - - - - - - - - agctaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttgtgt