Sequence
atgc intronic sequence ATGC exonic sequencegttaaaccatcattaattcatcatcagtttctgtgaaaacaatgaacagttcactatttgtgtattaactggaaggaatttgtgcagATAGCTACTCGTGCAGGTGGTTTATCTGCTATCATTGTTGTTGGTATGGCTGTAATTGGTATAGCAGTCCTTTATGCCACATTTTATGTTTGGTTGGAAG
Basic information
species | Glycine max |
transcript | GLYMA08G24120.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G78920.1 (Arabidopsis thaliana), 3'ss of exon 5
gttaaaccatcattaattcatcatcagtttctgtgaaaacaatgaacagttcac-tatttgtgtattaactggaaggaatttgtgcagATAGCTACTCGTGCAGGTGGTTTATCTGCTATCATTGTTGTTGGTATGGCTGTAATTGGTATAGCAGTCCTTTATGCCACATTTTATGTTTGGTTGGAAG
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--------gttcttctttagt--ttagctattttggtaaca-tgtcatgtacacgtttccaaatactaagtggcagatata-atgcagATAGCCGTTCGTGCTGGTGGGTTTTCAGCCCTGGTTGTTGTTGGTATGGCTGTGATTGGTATCGCCATCCTCTATTCTACATTTTATGTGTGGTTGGGCG
upper sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 6
gttaaaccatcattaattcatcatcagtttctgtgaaaacaatgaacagttcac-tatttgtgtattaactggaaggaatttgtgcagATAGCTACTCGTGCAGGTGGTTTATCTGCTATCATTGTTGTTGGTATGGCTGTAATTGGTATAGCAGTCCTTTATGCCACATTTTATGTTTGGTTGGAAG
|| | | ||| | | || | || ||| | || ||| || | ||| || ||||||||||| |||||| ||||| || || ||| | ||||||||||||||||||| |||||||| || |||| ||| | ||||||||||| |||||||| |
--------------gtttgttttttagtattaataggaattc----ctgtacacatggccaaatactaagtg-atggatttaatgcagATAGCTGTTCGTGCTGGTGGATTCTCAGCTCTGGTTGTTGTTGGTATGGCTGTGATTGGTATTGCCATCCTGTATTCTACATTTTATGTATGGTTGGACG
upper sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 5
------gttaaaccatc-attaattcatcatcagtt--tctgtgaaaac---aatgaacagttcactatttgtgtattaactggaaggaatt-tgtgcagATAGCTACTCGTGCAGGTGGTTTATCTGCTATCATTGTTGTTGGTATGGCTGTAATTGGTATAGCAGTCCTTTATGCCACATTTTATGTTTGGTTGGAAG
||| | | | || | | | | | | |||| || | || ||||| | | ||| |||| || ||||||||||||| |||||| |||||||| ||||| | |||||||||||||||||||||||||| | || |||||||||||||||||||||||||||||| |
ttccaggttcattttcctaatagtgaggaaaaaaataacccatcaaaatttaaacaggaaaatctatatttcttttgtaataggaaaatatcatgtgcagATAGCTGTTCGTGCTGGTGGTTTCTCTGCCCTTGTTGTTGTTGGTATGGCTGTAATTGGTGTTGCCATCCTTTATGCCACATTTTATGTTTGGTTGGGCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaaaacaatgaacagttcactatttgtgtattaactggaaggaatttgtgcagATAGCTACTCGTGCAGGTGGTTTATCTGCTATCATTGTTGTTGGTATGGCTGTAATTGGTATAGCAGTCCTTTATGCCACATTTTATGTTTGGTTGGAAG
tattaac putative branch site (score: 1)
tatttgtgtattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaaaccatcattaattcatcatcagtttctgtgaaaacaatgaacagttcactatttgtgtattaactggaaggaatttgtgcagATAGCTACTCGTGCAGGTGGTTTATCTGCTATCATTGTTGTTGGTATGGCTGTAATTGGTATAGCAGTCCTTTATGCCACATTTTATGTTTGGTTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG