Sequence
atgc intronic sequence ATGC exonic sequence...cttaggcgctaatcctctcttaaaataattttctttgaaaaaataattaatagcatacagcagagcattttctatcacaaagctgctattgagtttgcagATCGCTTTAATACCGCCCTCGTTTGCCACAGATGGAATTACTTGGCATGTCATCCTCGCTTGTGGCTTCGGGTTGATCGATCAGTTAAAGAGTTATCTGA
Basic information
species | Glycine max |
transcript | GLYMA11G21550.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G21550.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G54480.2 (Arabidopsis thaliana), 3'ss of exon 1
-cttaggcgctaatcctctcttaaaataattttctttgaaaaaataattaatagcatacagcagagcatttt----ctatcacaaa-gctgctattgagtttgcagATCGCTTTAATACCGCCCTCGTTTGCCACAGATGGAATTACTTGGCATGTCATCCTCGCTTGTGGCTTCGGGTTGATCGATCAGTTAAAGAGTTATCTGA
| | | | | | || || ||| ||| | | || | || ||| ||| ||| || | || ||||||||||||| | | ||| || || ||||||||||||||||||| || |||| ||||| |||||||||||||| || ||||| || | || || || |||||| |
tttgaaaatttcgtattttgtttgtatgattgacttgggca------tttgttgcgtactacagtctgtttcaatgctgttttgtgtatctcttgtgagtttgcagATAGGTATAACACAGCACTCGTTTGCCACAGATGGAGATATCTGGCGTGTCACCCTCGCTTGTGGCTCCGTGTTGACCGTTTTGTCAAGGATTTATCTCA
upper sequence: GLYMA11G21550.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0139g00260.t01 (Vitis vinifera), 3'ss of exon 2
-------cttaggcgctaatcctctcttaaaataattttctt--tgaaaaaataattaatagcatacagcagagcattttctatcacaaagctgctattgagtttgcagATCGCTTTAATACCGCCCTCGTTTGCCACAGATGGAATTACTTGGCATGTCATCCTCGCTTGTGGCTTCGGGTTGATCGATCAGTTAAAGAGTTATCTGA
| | || | | | | || || || | ||| | ||| ||||||| | ||| ||| | ||| ||||||||||||||||| | ||| |||||||||||||||||||||||| ||||| |||||||||| || || | ||||| || || ||||| || || ||||| | ||||||
agttcattctcgatactgctgttgcatctgagagatgttgttgccccatgcatatatgatatcatacag--------tctctgtcatgga-ttgccattgagtttgcagATCGGTATAACACCGCCCTCGTTTGCCACAGATGGCATTACCTGGCATGTCACCCACGTCTATGGCTGCGAGTAGATCGGTCTGTGAAAGATTCATCTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attaatagcatacagcagagcattttctatcacaaagctgctattgagtttgcagATCGCTTTAATACCGCCCTCGTTTGCCACAGATGGAATTACTTGGCATGTCATCCTCGCTTGTGGCTTCGGGTTGATCGATCAGTTAAAGAGTTATCTGA
aattaat putative branch site (score: 3)
attttctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttaggcgctaatcctctcttaaaataattttctttgaaaaaataattaatagcatacagcagagcattttctatcacaaagctgctattgagtttgcagATCGCTTTAATACCGCCCTCGTTTGCCACAGATGGAATTACTTGGCATGTCATCCTCGCTTGTGGCTTCGGGTTGATCGATCAGTTAAAGAGTTATCTGA
- - - - - - tcctctc
- - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - gcataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagctgc