Sequence
atgc intronic sequence ATGC exonic sequence...tcaaattgacatttatttttgtttgaagttattacttgtagtaatgcctgttttaactaatgtgttggatctaactcacttttacaacaatttctgaaagATATACTAAAAGACCTTTGTGTCTACAACAACAAAGGAACTAATCAAGACACGTATGAACTGAAGCCTGAATACAGAAAATCTG
Basic information
species | Glycine max |
transcript | GLYMA17G23220.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G23220.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv13s0019g03980.t01 (Vitis vinifera), 3'ss of exon 5
------tcaaattgacatttatttt-tgtttgaagttattacttgtagt--aatgcctgttttaactaatgtgttggatctaactcac-----ttttacaacaatttctgaaagATATACTAAAAGACCTTTGTGTCTACAACAACAAAGGAACTAATCAAGACACGTATGAACTGAAGCCTGAATACAGAAAATCTG---
|| | |||||| || |||| | || || | || ||| |||| | || | | | | ||||| || | ||| ||||||||||||||| | || || || || ||||||||||||||||| |||||||| |||| || || || |||||||| ||||||| | ||| |
tttgcagtctatgaatgaatattttatgggtgaactagttttttttggtttggtgcttgttctg-ctgttttttctgtgttaactgacagatgctccacagCAATTTCTGAAAGATTTGCTGAAGGATCTCTGTGTCTACAACAACAAGGGAACTAACCAAGGAACATACGAGCTGAAGCCAGAATACAAGAGATCGGGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctgttttaactaatgtgttggatctaactcacttttacaacaatttctgaaagATATACTAAAAGACCTTTGTGTCTACAACAACAAAGGAACTAATCAAGACACGTATGAACTGAAGCCTGAATACAGAAAATCTG
aactcac putative branch site (score: 2)
tttct putative PPT
ttttacaacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaattgacatttatttttgtttgaagttattacttgtagtaatgcctgttttaactaatgtgttggatctaactcacttttacaacaatttctgaaagATATACTAAAAGACCTTTGTGTCTACAACAACAAAGGAACTAATCAAGACACGTATGAACTGAAGCCTGAATACAGAAAATCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - ttgtttg
- - - - - - - - - - - - - - - - - - - - - aatgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgttgg