Sequence
atgc intronic sequence ATGC exonic sequence...tgtcttgagtgtcaattgccagatgatttgacgtgtttgatttgattattgagcagttgatcagaaaaatctcacatttctggttctaattccatgtcagGTTAATCCCCAATTCTATGCATTTAGGTGGATTACTCTCCTCTTGACACAGGAATTTAATTTTGCTGACATCCTTCATATTTGGGACGTCATTTTAAGTG
Basic information
species | Glycine max |
transcript | GLYMA11G36520.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G36520.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G04830.2 (Arabidopsis thaliana), 3'ss of exon 7
-----tgtcttgagtgtcaattgccagatgatttgacgtgtttgatttgattattgagcagttgatcagaaaaatctcacatttctggttctaattccatgtcagGTTAATCCCCAATTCTATGCATTTAGGTGGATTACTCTCCTCTTGACACAGGAATTTAATTTTGCTGACATCCTTCATATTTGGGACGTCATTTTAAGTG
| ||| | || | || | || | | || | | || | ||| | | | || | | |||| | || ||||| ||||| || |||||||||||||||||||| ||||||||| | ||||| || |||| ||| ||||| ||||| || ||||| | | ||||| |
cagcttactttgtattcttgttctcctatc-cataacataataacagtggat-tggatcctctgagattgagactgacattgtatagattct---ttgattacagGTAAATCCACAGTTCTATGCATTTAGGTGGATCACTCTCCTCCTAACACAAGAGTTTAGTTTCTTTGACAGTCTTCACATATGGGATGCACTCTTAAGCG
upper sequence: GLYMA11G36520.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 7
tgtcttgagtgtcaattgccagatgatttgacgtgtttgatttg-attattga-gcagttgatcagaaaaa-tctcacatttctggttct----aattcca--tgtcagGTTAATCCCCAATTCTATGCATTTAGGTGGATTACTCTCCTCTTGACACAGGAATTTAATTTTGCTGACATCCTTCATATTTGGGACGTCATTTTAAGTG
| | || |||||| || ||| | ||| || || ||| | ||| | | || ||||| || |||| | || | || || || ||||| ||||||||||| ||||||||||| ||||| |||||||||||||| || || || |||||||| |||| |||||| ||||||||| || ||||||
---------cataagctggcagatgtttggacttcagtgaattacatcatttttacccttggttggtcaatctctcagatgtctgatgctctatatttgcaaatggcagGTCAATCCCCAATTTTATGCATTTAGATGGATAACTCTCCTCTTGACTCAAGAGTTCAATTTTGCGGACAGCCTTCACATTTGGGACACACTTCTAAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattgagcagttgatcagaaaaatctcacatttctggttctaattccatgtcagGTTAATCCCCAATTCTATGCATTTAGGTGGATTACTCTCCTCTTGACACAGGAATTTAATTTTGCTGACATCCTTCATATTTGGGACGTCATTTTAAGTG
ttctaat putative branch site (score: 2)
agaaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtcttgagtgtcaattgccagatgatttgacgtgtttgatttgattattgagcagttgatcagaaaaatctcacatttctggttctaattccatgtcagGTTAATCCCCAATTCTATGCATTTAGGTGGATTACTCTCCTCTTGACACAGGAATTTAATTTTGCTGACATCCTTCATATTTGGGACGTCATTTTAAGTG
- - -tgagtgt
- - - - - - - - tgccaga
- - - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - gtgtttg
- - - - - - - - - - - - - - - - - - - - - - - - - - gcagttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agaaaaa