Sequence
atgc intronic sequence ATGC exonic sequence...aaacatcgctgtaaatattatagtgtttgacatcagtaactcttactattattttagtgtttattggcataaatgaggtttcaatcatcttttcgtgcagGAGTATTATTCTTTTGCCCATTGCATGGGAGGTGGTTGTGCAAGCATTGCCACCTCTTTCATTTTTACTCCCAGTGAGCGAATAAAGCAGCAGATGCAAG
Basic information
species | Glycine max |
transcript | GLYMA05G37810.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37810.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g44570.1 (Oryza sativa), 3'ss of exon 3
------aaacatcgctgtaaatattatagtgtttgacatca-gtaactcttactattattttagt---gtttattggcataaatgaggtttcaatcat-cttttcgtgcagGAGTATTATTCTTTTGCCCATTGCATGGGAGGTGGTTGTGCAAGCATTGCCACCTCTTTCATTTTTACTCCCAGTGAGCGAATAAAGCAGCAGATGCAAG
| | | | | ||| || | ||| ||| || ||| | || |||| | || | | | | ||| | || | || | ||||||||| |||| |||| ||||||| | ||||||||| | |||||||| || || ||| ||||||| |||||||| | ||||| |||||||||||||
gtgacaatatgttcattcattcattttaattttttggctcatgtctatctagttttttgtttaccacagattttaattttgtactatgttgttacaatgccatttcttcagGAGTATCATTCAATTGCTCATTGCACTGCTGGTGGTTGTTCTAGCATTGCAACTTCCTTCGTTTTTACACCCAGTGAATGCATAAAACAGCAGATGCAAG
upper sequence: GLYMA05G37810.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G11440.1 (Arabidopsis thaliana), 3'ss of exon 3
aaacatcgctgtaaatattatagtgtttgacatcagtaactcttactattattttagtgtttattggcataaatgaggtttca--atcatcttttcg----tgcagGAGTATTATTCTTTTGCCCATTGCATGGGAGGTGGTTGTGCAAGCATTGCCACCTCTTTCATTTTTACTCCCAGTGAGCGAATAAAGCAGCAGATGCAAG
| | | ||| | || | || || | | ||||| | |||| | | || | | | || | | | ||||| |||| || | ||||| ||| | | ||||||| |||||||||||| || ||||| || || || || |||||||| ||||| |||||||||||||
-----------------gtctcttttttctcgcatgtctccatt-cttctgatggcctgtttcgcagaataagtaaagtcatattactaaattcttgaaatttcagGAATATTGCTCCCTAGCCCACTGCTTAGCTGGTGGTTCTGCAAGCATTGCAACTTCTTTTATCTTCACGCCTAGTGAGCGCATAAAACAGCAGATGCAAG
upper sequence: GLYMA05G37810.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv02s0025g03490.t01 (Vitis vinifera), 3'ss of exon 2
-aaacatcgctgtaaatattatagtgtttgacatcagtaactcttactattattttagtgtttattggcataaatgaggtttcaatcatcttttc-gtgcagGAGTATTATTCTTTTGCCCATTGCATGGGAGGTGGTTGTGCAAGCATTGCCACCTCTTTCATTTTTACTCCCAGTGAGCGAATAAAGCAGCAGATGCAAG
|| | | | | || | || ||| || | || | | | || ||| || ||| ||| | ||||| |||| ||||||| | | | ||| |||| || ||||||| ||||||||||||||||||||| || ||||||||||||||||||||||||| |||||||| |||||||||
caagtgtgaagcctagaagtttat--tctggcatttgttcttagtataacagatgtgatgcttagtgtcattgtggagcacttgatcattttttttatgcagGAATGTCACTCTATTGCACACTGCATGGCAGGTGGTTGTGCAAGCATTGCTACTTCTTTCATTTTTACTCCCAGTGAGCATATAAAGCAACAGATGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctattattttagtgtttattggcataaatgaggtttcaatcatcttttcgtgcagGAGTATTATTCTTTTGCCCATTGCATGGGAGGTGGTTGTGCAAGCATTGCCACCTCTTTCATTTTTACTCCCAGTGAGCGAATAAAGCAGCAGATGCAAG
tcatcttttc CT-rich tract
attttagtgtttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaacatcgctgtaaatattatagtgtttgacatcagtaactcttactattattttagtgtttattggcataaatgaggtttcaatcatcttttcgtgcagGAGTATTATTCTTTTGCCCATTGCATGGGAGGTGGTTGTGCAAGCATTGCCACCTCTTTCATTTTTACTCCCAGTGAGCGAATAAAGCAGCAGATGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG