Sequence
atgc intronic sequence ATGC exonic sequence...gaatttcccatttatttagcttaacaacttggttgattaattaatatgtatacgctagacatatatcattgaattaacaagtaacattgtcatgtatcagCGGCAACTAAGCACCTTACATGGCCTATCAGAATGAAAATTGCAATTGGTGCTGCTAATGCCCTTGCATTTTTGCATGAGGAAGCTTCAAGGCCAGTAAT
Basic information
species | Glycine max |
transcript | GLYMA19G02730.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G02730.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 3'ss of exon 3
gaatttcccatttatttagcttaacaacttggttgattaattaatatgtatacgctagacatatatcattgaattaacaagtaacattgtca--tgtatcag-
|| | | |||| || ||| || || | | | | | ||| | | | | ||| | | | | | | | | | ||||| | | | || | || ||||| | |||||||||| ||| ||| ||||||||||||| | |||||| ||| | ||||| |||||| ||||||||| ||
---gttgcgttaaatttggcccaactgtttcatt--tcagtataactctattc-tgaagtgtcttgtatttatctgatatttgtcttggataattgtattaaacagGGTCTTTACCTCTCCCATGGGCCATCAGAATGAGAATAGCACTTGGTGCTGCTAAGGGCCTTGCTTTTCTTCATGAAGAAGCTGAAAGGCCAGTTATCTA
upper sequence: GLYMA19G02730.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 3
gaatttcccatttatttagcttaacaact-tggttgattaattaatatgtatacgctagacatatatcattgaattaacaagtaacattgtcatgtatcagCGGCAACTAAGCACCTTACATGGCCTATCAGAATGAAAATTGCAATTGGTGCTGCTAATGCCCTTGCATTTTTGCATGAGGAAGCTTCAAGGCCAGTAAT---
| | || | | || | || | || || |||| | | | | | || || || | | | ||| ||| |||| | || | | || ||| | ||| | |||||||||||||||||| |||||||||| || | ||||| ||| | |||||||||||| ||||||||||||
--ttgactgatagcatcaatttgagaattgtgattagaaaatttcattatggttggt-ggtatttaatgtt-atctggtatttaatggtgttatgtgcctgcagGGGCCCTGCCTCTTCCTTGGTCCATCAGAATGAAAATTGCACTTGGTGCTGCAAAGGGTCTTGCCTTTCTTCATGAGGAAGCTGAAAGGCCAGTAATATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtatacgctagacatatatcattgaattaacaagtaacattgtcatgtatcagCGGCAACTAAGCACCTTACATGGCCTATCAGAATGAAAATTGCAATTGGTGCTGCTAATGCCCTTGCATTTTTGCATGAGGAAGCTTCAAGGCCAGTAAT
aagtaac putative branch site (score: 2)
atatatcattgaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaatttcccatttatttagcttaacaacttggttgattaattaatatgtatacgctagacatatatcattgaattaacaagtaacattgtcatgtatcagCGGCAACTAAGCACCTTACATGGCCTATCAGAATGAAAATTGCAATTGGTGCTGCTAATGCCCTTGCATTTTTGCATGAGGAAGCTTCAAGGCCAGTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- -tttccca