Sequence
atgc intronic sequence ATGC exonic sequence...ctcgatagggatgctcttcagttttaagggtgatttgtattattgcactatcacttgaaatgatattattgtgagcttactgtcttgtatatgttttcagTGGGTTGATTGTGTTTCACAACTATTGCGGATGTATCCTTTTGCTTTTGAGTTTTCTGCG
Basic information
species | Glycine max |
transcript | GLYMA10G34510.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 15
----------------ctcgatagggatgctcttcagttttaagggtgatttgtat-tattgcactatcacttgaaatgatattattgtg-agcttactgtcttgtatatgttttcagTGGGTTGATTGTGTTTCACAACTATTGCGGATGTATCCTTTTGCTTTTGAGTTTTCTGCG
| | | || | | | || || | ||| || |||| || || ||| | | | | || | | | | ||| ||||| |||||| ||||| | |||||||| ||| ||||||||||||||| |||||||||||||||| ||
gtgaccgagcaattattcctcttgcaattatagtaatacttttggtttgtttagatctatttca--atgggttggcagaccaacagcttatagtatgtttacatctatgtgtttccagTGGATTGATAGCGTTTCACAGCTAATGCGGATGTATCCTTGTGCTTTTGAGTTTTCTCCG
upper sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 9
lower sequence: AT5G04540.1 (Arabidopsis thaliana), 3'ss of exon 15
-------------ctcgatagggatgctcttcagttttaagggtgatttgtattattgcactatcacttgaaa-tgatattattgtgagcttactgtcttgtatatgttttcagTGGGTTGATTGTGTTTCACAACTATTGCGGATGTATCCTTTTGCTTTTGAGTTTTCTGCG
| | ||| | ||| ||| | | | | || | | | | | || | | ||||| | | || | || ||||| |||||| ||||||| ||||||| ||| ||||||||||||||| |||||| ||||||||| ||
gtgaccagctattacctgcaattatgttattccttttgatttggaaaatctacttacgatagctgagtggagcctaagattatatcatgttcacgtttatg---gtgtttgcagTGGCTTGATTGCATTTCACAGCTAATGCGGATGTATCCTTCTGCTTTCGAGTTTTCTCCG
upper sequence: GLYMA10G34510.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv13s0074g00300.t01 (Vitis vinifera), 3'ss of exon 15
---ctcgatagggatgctcttcagttttaagggtgatttgtattattgcactatcacttgaaatgatattattgtgagcttactgtcttgt-atatgtttt-cagTGGGTTGATTGTGTTTCACAACTATTGCGGATGTATCCTTTTGCTTTTGAGTTTTCTGCG
| || | | | | ||| | | || || | || | | || | || || | ||| || | |||| || | || | |||||||| |||||||| |||||||| ||||||||||||||||||||||||||||| || ||
aaattgtatcgaatcattgtatcatattatgtattgcaagt-ttttaacaatgggat----aactaggttttttttttctttcttttttgtcatgttttctgcagTGGGTCGATTGTGTATCACAACTGTTGCGGATGTATCCTTTTGCTTTTGAGTTCTCCTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cactatcacttgaaatgatattattgtgagcttactgtcttgtatatgttttcagTGGGTTGATTGTGTTTCACAACTATTGCGGATGTATCCTTTTGCTTTTGAGTTTTCTGCG
agcttac putative branch site (score: 3)
tgttttc putative PPT
ttgaaatgatattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcgatagggatgctcttcagttttaagggtgatttgtattattgcactatcacttgaaatgatattattgtgagcttactgtcttgtatatgttttcagTGGGTTGATTGTGTTTCACAACTATTGCGGATGTATCCTTTTGCTTTTGAGTTTTCTGCG
- - - - ggatgct
- - - - - - - - - - - - - - - tgatttg
- - - - - - - - - - - - - - - - - - - - - -tgcacta
- - - - - - - - - - - - - - - - - - - - - - - - - -cacttga