Sequence
atgc intronic sequence ATGC exonic sequence...ctttatttttgtaccataccatatgcctgtgtttttgctgctgctgtttagtttgcttgtcatacttataatatgatggtgtttcaataatataatacagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
Basic information
species | Glycine max |
transcript | GLYMA13G25010.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g44710.2 (Oryza sativa), 3'ss of exon 4
-----------------------------------------------------------------------------------------ctttatttttgtaccataccatatgcctgtgtttttgc-tgctgctgtttagtttgcttgtcatacttataatatgatggtgtttcaataata-taatacagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
||| | |||| || | | ||| ||| || | | | | | || | ||| | | | | | | | | || ||| | ||||| || | ||||| ||||| ||||| || || | ||| | ||||| | || |||||||||||||||||||| |||||||||| ||
gtaggtgttagcattactattactttcaaacaacacaactaccaaaggaatatagtgtcatttggtatattttgtacaccgcaatcaatgttttgtgttgtctaatttccttcatacaaatttccatgtgcatgaacataatgtcttggaattttccatcttttgacgttaatgctacaccactcttatagGCTCTCGAAAGTCTCTGCTGAATGTATTCCATGATGGGTCTTGCCACCCAGAAATGGCCCTAGTGATTGATGATCGCTTGAAAGTTTGGGATGAGAAAGA
upper sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G120373_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------------ctttatttttgtaccataccata-tgcctgtgtttttgctgctgctgtttagtttgcttgtcatacttataatatgatggtgtttcaataatataat-acagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
| | | | |||| | | | | | | | | | || | || | || | | || | || ||| || | | |||||| || ||||| ||| | ||||||||||| |||||||| || |||| |||||||| ||||||||||||||| ||||||| |||||||||| |||
gtatgtaattcatcttgtttttgaacaagtacaaaaagagcattagcctaatgtggcctaaatgttgtcatactcaaaagttgacaaactgtgaaaaatacaattcaaatttttagtttcattc-tactgaaattaatgccaaatttcctatttatagGTTTAAAAAAGTCCTTGCTAAATGTCTTCCATGATGGTTCTTGCCATCCTGGTATGGCATTAGTAATTGATGATCGCCTGAAAGTTTGGGATGAGAAGGA
upper sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21670.1 (Arabidopsis thaliana), 3'ss of exon 3
ctttatttttgtaccataccatatgcctgtgtttttgctgctgctgtttagtttgcttgtcatacttataatatgatggtgtttcaataatataatacagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
|||| | || | | || | ||||| | ||| | | || | |||| | | | | | || ||| | | |||||||| || |||||| |||||||||| || | ||||| | || ||||||||||||||||||||||||||||||| |||||||| |||||||||| |||
-------------gtatactttttgg-tatcttatacctgcttatatttcatca--tggtaaaacttcttacaagcttgt-----aattaaccaccacagGTTTTAAAAAGTCACTGTTCAATGTGTTTCTCGATGGAACCTGCCATCCAAAGATGGCATTGGTAATTGATGATCGATTGAAAGTTTGGGATGAGAAGGA
upper sequence: GLYMA13G25010.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0370g00040.t01 (Vitis vinifera), 3'ss of exon 3
---------------------------------------------------------------------------------------------ctttatttttgtaccataccatatgcctgtgtttttgctgctgctgtttagtttgcttgtcatacttataatatgatggtgtttcaataatataat--acagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
| ||||| ||| | | | ||| | ||| | | |||| | | | || || | || | |||| || || | | | ||| | | |||||| ||||||||||||| |||||||| || |||| |||||||| || |||||||||||||| ||||||||||||||||| | ||
gtaagtttttaaaagaaatggttgatcttagggatgacttatgccatccacagcagaccaaagacaagctaattaattatatagcttctgatatgattttttttcacccattcttgtagttgt-tacttgttatt-ctgtaaaccacgtacattatcctcaatatcctacttattttctttattaaatttgatagGCTCAAGAAAGTCACTGTTCAATGTCTTTCAAGATGGAATCTGCCATCCTAAGATGGCTTTAGTAATTGATGATCGTTTGAAAGTGTGGGATGAAAAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttagtttgcttgtcatacttataatatgatggtgtttcaataatataatacagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
tgtttcaataatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctttatttttgtaccataccatatgcctgtgtttttgctgctgctgtttagtttgcttgtcatacttataatatgatggtgtttcaataatataatacagGTTTGAAGAAGTCATTGTTCAATGTCTTCCAAGATGGTTCATGTGATCCAAAGATGGCATTGGTAATTGATGATCGCTTGAAAGTGTGGGATGAGAGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - -ccatacc
- - - - - - - - - - -tatgcct
- - - - - - - - - - - - - - - - - - -ctgctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatggtg