Sequence
atgc intronic sequence ATGC exonic sequence...tattaataccttctccttttaagttcaaatagttaattatcaatcttgacgtacgttatcataaaaccggcaacggttattggtgacattctccgtgtagCCGGATTCAAGAACAAGGCTCCACAATTCAACTTCGTGTGTCGAAAAAACGTTGTTCTGAGCATTGACTCCGACAAAACCGACGAAGTTGAGCTACAAAA
Basic information
species | Glycine max |
transcript | GLYMA12G32410.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G32410.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv12s0134g00230.t01 (Vitis vinifera), 3'ss of exon 2
-------------tattaataccttctccttt----taagttcaaatagtta-attatcaatcttgacgtacgttatcataaa-----accggcaacggttattggtgacattctccgtgtagCCGGATTCAAGAACAAGGCTCCACAATTCAACTTCGTGTGTCGAAAAAACGTTGTTCTGAGCATTGACTCCGACAAAACCGACGAAGTTGAGCTACAAAA
|||| || || | | | || ||| || || | || | | ||| | | || | ||| |||| || || || ||||||| ||||||||||||||||| || |||||||| || | || ||||||| || | ||| ||
gtaagattcaatgcattataacattattgatggtgatgagcatgaatttatatatgctttatttgtttaaaaaatattgcagGTCTCTATCGATATCGG--GTTGGAGATATACTTTGTGTAGCTGGATTCAAGAACAAGGCGCCCCAATTCAAATTTATCTGCAGAAAAAATGTGGCTCTTAG--------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacgtacgttatcataaaaccggcaacggttattggtgacattctccgtgtagCCGGATTCAAGAACAAGGCTCCACAATTCAACTTCGTGTGTCGAAAAAACGTTGTTCTGAGCATTGACTCCGACAAAACCGACGAAGTTGAGCTACAAAA
tcttgac putative branch site (score: 3)
cattctcc putative PPT
ttatcataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattaataccttctccttttaagttcaaatagttaattatcaatcttgacgtacgttatcataaaaccggcaacggttattggtgacattctccgtgtagCCGGATTCAAGAACAAGGCTCCACAATTCAACTTCGTGTGTCGAAAAAACGTTGTTCTGAGCATTGACTCCGACAAAACCGACGAAGTTGAGCTACAAAA
- - - - -cttctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ataaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggtgac