Sequence
atgc intronic sequence ATGC exonic sequence...actcatgtttcatttctgcatatagttgaatgcattatgaatttgtgattaatattttctgcagtgtttgatgttttcttttcagcttagataactatagCTGGGTATTTCAGGGCTTTGCAAATTGCGCTGTTTCCCACCTGTTGCACTTGCTTGGGATGATACATCTGGTCTTCATGTATATCCAAATTTGAACAGTG
Basic information
species | Glycine max |
transcript | GLYMA19G24220.2 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G24220.2 (Glycine max), 3'ss of exon 13
lower sequence: AT3G27325.2 (Arabidopsis thaliana), 3'ss of exon 13
-----------------------------------------------------------------------actcatgtt-tcatttctgcatatagttgaatgcattatgaatttgtgattaatattttctg----cagtgtttgatgttttcttttcagc-ttagataact-atagCTGGGTA--TTTCAGGGCTTTGCAAATTGCGCTGTTTCCCACCTGTTGCACTTGCTTGGGATGATACATCTGGTCTTCATGTATATCCAAATTTGAACAGTG-------------
| || | ||||| | | | |||| || | | | | | || | | | ||| || | | || ||| | | || || || | |||||| ||| ||||||||||| ||||||||||||||||| ||||| |||||| | | ||||| ||||| || | | ||||| | ||||||
gtgagtattccaaaccctctctttaatcatagaggtctttcttttagttttgtctgttaatcttctagtcagcatctgccgtaatttcctgttcttttggaataacataatagtcttcactcttcagttcttaagcttaaagattgtcattcccctatcgatgttataaatctgatcattgttcaattttcagAGCTCTGCAAATTGCGTTGTTTCCCACCTGTTGCTCTTGCCTGGGATTCTGCTTCTGGACTTCACGTTTTTGCAAATCTATACAGTGAGACAATAGTTAT
upper sequence: GLYMA19G24220.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv13s0047g01140.t01 (Vitis vinifera), 3'ss of exon 8
actcatgtttcatttctgcatatagttgaatg-cattatgaatttgtgattaatat--tttctgcagtgtttgatgttttcttttcagcttagata--actatagCTGGGTATTTCAGGGCTTTGCAAATTGCGCTGTTTCCCACCTGTTGCACTTGCTTGGGATGATACATCTGGTCTTCATGTATATCCAAATTTGAACAGTG-------------
| |||| || ||||| | || ||| || |||| || | | |||| ||| | || | | | | | ||||||||||||| ||||||||||||||||||| ||||||||||||||| |||||| ||||||||||| |||||||||| | | |
------------------tgaagggttggttgatgttatgttccggggaataaaatcatttccacaccccccatccctctttttttctgttaattcttgctctttcctgacaatgaagGGCTTTGCAAACTGCGCTGTTTCCCACCTGTAGCACTTGCTTGGGATACTACATCAGGTCTTCATGTGGTTCCAAATTTGTATGGGGAGACTATTGTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattaatattttctgcagtgtttgatgttttcttttcagcttagataactatagCTGGGTATTTCAGGGCTTTGCAAATTGCGCTGTTTCCCACCTGTTGCACTTGCTTGGGATGATACATCTGGTCTTCATGTATATCCAAATTTGAACAGTG
agataac putative branch site (score: 3)
aatattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
actcatgtttcatttctgcatatagttgaatgcattatgaatttgtgattaatattttctgcagtgtttgatgttttcttttcagcttagataactatagCTGGGTATTTCAGGGCTTTGCAAATTGCGCTGTTTCCCACCTGTTGCACTTGCTTGGGATGATACATCTGGTCTTCATGTATATCCAAATTTGAACAGTG
- tcatgtt
- - - - - - -ttctgca
- - - - - - - - tgcatat
- - - - - - - - - - - - - -gaatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtttg