Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaattctatgcttaaattttcattgtggcatattttcagttaatattgtttaccaaacttaaaatggtttgttatttctttcgcctcttagGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
Basic information
species | Glycine max |
transcript | GLYMA05G30850.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G13000.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaaaaatt-ctatgcttaaattt--tcattgtggcatattttcagttaatattgtttaccaaacttaaaatggtttgttatttctttcgcctctta-gGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
||||| || || | ||| | | | | | | | || ||||||| | | | | | | |||||| | | ||| |||||||||| || |||||||| ||||| |||||||||| ||| ||||||||| | ||||| |||||||||||||| || |||| || ||| ||| |||
gtaaacataactttactttgctctagctactccaatcttcctgaggctagc-ttgtttaacca-ttaactctctctggttattgtatatatattttaagGTGGTATGCTAAAAGGTTTCTGCATCCTGACATTGTGGCACCTTATGACTATGTATTCATCTGGGATGAAGACCTCGGCCTTGAAAACTTCGATGTAGAA
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 5
lower sequence: AT1G67850.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaaaaattctatgcttaaattttcattgtggcatattttcagttaatattgtttaccaaacttaaaatggtttgttatttctttcgcctcttagGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
||| || ||| | | || || || | | || |||| |||||| | | | ||| | | | ||||||||||||| ||||||||| | || || || ||||| | | |||||| ||||| ||| | ||||||||||||||||| || ||| |||| || || |||
gtaccaaac--gctctttattctttatggtagaaaat----agtttggtgtgtttat-gactactgactcccttggcacctggaa-atatattagGTGGTATGCAAAGAGGTTTTTGCACCCTGATATTGTAGCAAGATATGATTATATCTTCGTCTGGGATGAAGACCTGGGTGTCGAGCATTTTAACGCAGAA
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G26440.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaaaaattctatgcttaaattttcattgtggcatattttcagttaatattgtttaccaaacttaaaatggtttgttatttctttcgcctcttagGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
|||| || | | | |||| || | | | |||| || || | ||| ||||| | |||| || | |||| | ||||||||||| || |||||||| ||||| || || | | ||||||||| ||||| ||||| ||||||||||| || || ||||| || ||| | || |||
gtaacaaaacaa---acactttttttttatctctcagtttccattgatctaaagctttaaa--taaaacgttttga-atatgtttc-tattgaagGTGGTATGCTAAAAGGTTTCTGCATCCTGATATCATAGCACCATATGAATATATATTCATTTGGGATGAAGATCTTGGCGTTGAAAACTTCGACGCAGAA
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv00s0187g00030.t01 (Vitis vinifera), 3'ss of exon 3
------------------gtaaaaattctatgcttaaattt---tcattgtggcatattttcagttaatattgtttaccaaacttaaaatggtttgttattt-ctttcgcctcttagGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
| | | || | | || ||| | || ||| | ||| | ||| || | | | || || ||| | | || ||||||||||||||| || ||||| ||||| |||||||||| |||||||||||||| || || ||||||||||| || || |||||| |||| ||||| |||
gtaaggagcttctgcaaaggattatttttgaacagaagtttcactttttctggtaggtttcaataagctatggtctgttttattcttttaacttcattctttgcaattttgtcctagGTGGTATGCCAAAAGATTTCTGCATCCTGACATTGTGGCGCCATATGACTATATATTTATCTGGGATGAAGATCTAGGAGTTGAGCATTTTAATGCAGAA
upper sequence: GLYMA05G30850.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv01s0137g00770.t01 (Vitis vinifera), 3'ss of exon 7
------------------gtaaaaattctatgcttaaattt---tcattgtggcatattttcagttaatattgtttaccaaacttaaaatggtttgttattt-ctttcgcctcttagGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
| | | || | | || ||| | || ||| | ||| | ||| || | | | || || ||| | | || ||||||||||||||| |||||||| ||||| |||||||||| |||||||||||||| || || ||||||||||| || || |||||| |||| ||||| |||
gtaaggagcttctgcaaaggattatttttgaacagaagtttcactttttctggtaggtttcaataagctatggtctgttttattcttttaacttcattctttgcaattttgtcctagGTGGTATGCCAAAAGGTTTCTGCATCCTGACATTGTGGCGCCATATGACTATATATTTATCTGGGATGAAGATCTAGGAGTTGAGCATTTTAATGCAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagttaatattgtttaccaaacttaaaatggtttgttatttctttcgcctcttagGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
agttaat putative branch site (score: 4)
tttgttatttctttcg putative PPT
tttgttatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaattctatgcttaaattttcattgtggcatattttcagttaatattgtttaccaaacttaaaatggtttgttatttctttcgcctcttagGTGGTATGCCAAGAGGTTTCTACATCCAGACATTGTGGTACCATATGACTATATTTTCATGTGGGATGAAGACCTGGGGGTTGAGAATTTCAATGCTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG