Sequence
atgc intronic sequence ATGC exonic sequence...taagtgaacccactgattttattttttataatttgcacccactgacttagggtcttggttccgccactgcccgaacttatttcctctttgctttaatcagGAAGGACGGTCGTTATACTGAAAAAGACTCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAT
Basic information
species | Glycine max |
transcript | GLYMA02G05440.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os07g22710.3 (Oryza sativa), 3'ss of exon 2
-taagtgaacccactgattttattttttataatttgcacccactgacttagggtcttggttccgccactgc-ccgaacttatttcctctttgctttaatcagGAAGGACGGTCGTTATACTGAAAAAGACTCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAT
| | || | | |||||||| |||| | | | | || || | || | | | | || | | | | |||| | | |||||| || | ||||||| || ||||| | || || ||||| |||| |||||||||||||| |||||||| ||||| ||||||||||| || |||||
ctgaatgt-tcaaagatttttatttattattaagttcgtttgaatatttgatgtatgtagaaagcaaattcactgatatcacatttgttctgctctta-cagGAAAGATAGCCGTTATAGCGAGAAAGATGCTGCAGTAGTTGTGCGGCAAATGCTCAAGGTTGCTGCTGAGTGCCATTTGCATGGTTTGGTTCATCGGGAC
upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G365035_T01 (Zea mays), 3'ss of exon 3
taag-tgaacccactgattttattttttataatttgcacccactgacttagggt--cttggttccgccac-tgcccgaacttatttcctctttgctttaatcagGAAGGACGGTCGTTATACTGAAAAAGACTCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAT
|| | || || || | | ||| || | | | ||| | || || | | | ||| ||| | || | | | ||| | || |||||| || ||||||| | || ||||| | || || ||||| | |||||||||||||||||||||||||| || | ||||||||||| || |||||
tatgctgtgtttacactttacactctttctatatagtgct-gctgttctgatgtatctagaaggcatcttatgctggaattcatat--tttgtgcctgaa-cagGAAAGATAGTCGTTACAGCGAGAAAGATGCTGCAGTAGTTGTCCGACAGATGCTCAAGGTTGCAGCTGAGTGCCACCTGCATGGTTTGGTTCATCGGGAC
upper sequence: GLYMA02G05440.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv04s0023g03420.t01 (Vitis vinifera), 3'ss of exon 3
taagtgaacccactgattttattttttataatttgcacccactgacttagggtcttggt-tccgccactgcccgaacttatttcctctttg---ctttaatcagGAAGGACGGTCGTTATACTGAAAAAGACTCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAT
| | || || | || || | | || | ||||| || | | || | | ||||| | ||||| |||| ||||||||||| | ||||||| ||| ||||| |||| |||||||||||||||||||| ||||||||||||||||||||||||||| |||||||||| ||
ttctcaataacagcagaattgtcattc-tattatacagttatc--tttaggacattattatttaatacagtgtta-cttatctttgctttgtttctttgatcagGAAGGATAGCCGTTATAGTGAGAAAGATGCAGCAAAAGTTGTAAGGCAGATGCTCAAAGTTGCAGCTGAGTGTCATTTACATGGTCTGGTACACCGTGAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttagggtcttggttccgccactgcccgaacttatttcctctttgctttaatcagGAAGGACGGTCGTTATACTGAAAAAGACTCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAT
cttatttcctctttgc CT-rich tract
aacttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taagtgaacccactgattttattttttataatttgcacccactgacttagggtcttggttccgccactgcccgaacttatttcctctttgctttaatcagGAAGGACGGTCGTTATACTGAAAAAGACTCAGCGGTGGTTGTAAGGCAGATGCTCAAGGTTGCAGCTGAGTGTCATTTACATGGTTTGGTACACCGGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - aacccac
- - - - - - - - - - - - - - - - - -cacccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tggttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cactgcc