Sequence
atgc intronic sequence ATGC exonic sequence...ttgtctatttgtgccaatgttaaaaaaatgtgcgactttgctcaatgtagaatatggtttgattatgagtgtgatgtgtggctaattgatgcaatggcagGGCAAAATACAGGGAAGACAGTGGCTATAATAGTAGGAGGGGCAGCTGGAGTGGCGTTTTTGGTCATATGCTTGATGTTTGCTAGGAGTTTGAAGAAGAA
Basic information
species | Glycine max |
transcript | GLYMA20G34230.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G34230.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G04520.1 (Arabidopsis thaliana), 3'ss of exon 2
ttgtctatttgtgccaatgttaaaaaaatgtgcgactttgctcaatgtagaatatggtttgattatgagtgtgatgtgtggctaattgatgcaatggcagGGCAAAATA-CAGGGAAGACAGTGGCTATAATAGTAGGAGGGGCAGCTGGAGTGGCGTTTTTGGTCATATGCTTGATGTTTGCTAGGAGTTTGAAGAAGAA---
| | | |||| | || | | || | ||| ||| || || || || | ||| ||| || | | | | |||||||||| ||||| |||||||||||||| |||||||| || | ||| | ||||| |||||| | ||||| | | |||| || |||
-aattgagtaaaatagatgt--attttatctttatttatgaacgccgtacaattgaaattaataatattgatgccaaaaaga-aatgaatgaaaatgtggacagGAGCAACAGGGAAGACGGTGGCAATAATAGTAGGAGGAGCAGCTGGTGTTGGCTTTCTTGTCATTTGCTTGCTTTTTGCCAAAAACTTGATGAGGAAGAA
upper sequence: GLYMA20G34230.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv05s0049g01860.t01 (Vitis vinifera), 3'ss of exon 1
----------ttgtctatttgtgccaatgttaaaaaaatgtgcgactttgctcaatg-tagaatatggtt---tga-----ttatgagtgtgatg--tgtggctaattgatgcaatggcagGGCAAAATACAGGGAAGACAGTGGCTATAATAGTAGGAGGGGCAGCTGGAGTGGCGTTTTTGGTCATATGCTTGATGTTTGCTAGGAGTTTGAAGAAGAA
| | | | | | | ||||| || | ||| | ||| ||||| | ||| ||| |||| | ||| | ||||| |||| |||| | || | |||| ||||||||||||||| ||||| ||||||||||||||||| | | | | |||| |||| || || || |||||||||| | |||||
gtaaactgtagggaaaaacagagaaattactggaaaaacttggggttttctcctatgatagaaaagtgttcattgactactttattaatgttggggttgtggtggattggtgcagGGACACGTCAAACTACAGGGAAGACAGTTGCTATTATAGTAGGAGGGGCAGCAGCATTAGGGTTTGTGGTGATCTGTATGTTGTTTGCTAGAAATTTGAT------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtagaatatggtttgattatgagtgtgatgtgtggctaattgatgcaatggcagGGCAAAATACAGGGAAGACAGTGGCTATAATAGTAGGAGGGGCAGCTGGAGTGGCGTTTTTGGTCATATGCTTGATGTTTGCTAGGAGTTTGAAGAAGAA
tttgattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtctatttgtgccaatgttaaaaaaatgtgcgactttgctcaatgtagaatatggtttgattatgagtgtgatgtgtggctaattgatgcaatggcagGGCAAAATACAGGGAAGACAGTGGCTATAATAGTAGGAGGGGCAGCTGGAGTGGCGTTTTTGGTCATATGCTTGATGTTTGCTAGGAGTTTGAAGAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - -tttgtgc
- - - - - - - caatgtt
- - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - -gactttg
- - - - - - - - - - - - - - - - - - - - - -aatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gagtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgtgg