Sequence
atgc intronic sequence ATGC exonic sequencegtaaggcaatttttctattatgtattccagtatttctgttcttcatctgcaattttttgtttttaacttcataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
Basic information
species | Glycine max |
transcript | GLYMA02G32100.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G180988_T01 (Zea mays), 3'ss of exon 6
gtaaggcaatttttctattatgtattccagtatttctgttcttcatctgcaattttttgtttttaacttcataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
|| ||| | | | || ||| | | | || || | || || | | | | || | || | | | || ||||||||||| |||||| | | ||||||||||| ||||| || |||||||| ||||| |||||||| || |||||||| || | ||||| |||||| |
gtgaggga---tatataatatttggattggcaatttggtcgtctggctttt-ttctctatctctattcttatggggttttt-----atgccagATGATGGGAAATTACAGGCAGAGTCAGACTCTGGTGAATTCTGGGTCCTTTTTGGAGGTTTTGCACCAATTGGGAAAAAAACCGTGAGTGATGATGATGT
upper sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G047310_T02 (Zea mays), 3'ss of exon 6
gtaaggcaatttttctattatgtattccagtatttctgttcttcatctgcaattttttgtttttaacttcataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
|| ||| | | |||| | | || | |||| || | | |||||||| | || || || | | | || ||||||||||| ||| || | | ||||||||||| ||||| || |||||||| ||||| |||||||| || |||||||| || | ||||| |||||| |
gtgagggatatacgatatttggattggcaatttttccgtctgcc-----tatttttttgtctctatttttatggtctttttt----atgccagATGATGGGAAACTACAAGCAGAGTCAGACTCTGGTGAATTCTGGGTCCTTTTTGGAGGTTTTGCACCAATTGGGAAAAAAACTGTGAGTGATGATGATGT
upper sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G57410.1 (Arabidopsis thaliana), 3'ss of exon 7
---------------------------------------------gtaaggcaatttttctattatgtattccagtatttctgttcttcatc--tgcaattttttgtttttaacttcataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
| | ||| | | | ||| | || | || ||| | | | | | | | |||| | | | ||| ||||||||||||||||||| || || ||||| || || ||||| |||||||||||||| || |||||||| || | | ||| || ||||||||||| ||
gtaagttgtattagacgcattacaactaatatttgaatatcttctttttcacgttttgatcagtcaatcaagcagcagttggatgctcaatcaatttattgcggtactcatgcatgtataataatttccttgcataacagATGATGGAAAATTAGATACAGAATCAGATTCTGGCGAGTTCTGGGTCCTCTTTGGGGGGTTTGCTCCAATAGCAAGGAAAGTTGCGAGTGAGGATGAAAT
upper sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 4
lower sequence: AT2G41740.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------gtaaggcaatttttctattatgtattc-cagtatttctgttcttcatctgcaattttt-tgttt------ttaacttcataaaatctatcccac-attccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
| || ||| | | || |||| ||| | ||| | | |||| ||| | ||| || || | || ||| | || ||||||| ||||||||||| || || ||||| || |||| ||||||||||||||||||||||||||||| || || | ||| || | ||| ||||| ||
gtaagccaattgcaccttcttcctcagtttcctttaagtcaatgaacagtgttttaatacttaaagaataggttttgtgtgtggaaacttatctatattcatactttcctgctataacagATGACGGAAAATTAGATACAGAATCAGATTCTGGTGCATTTTGGGTCCTCTTTGGTGGTTTTGCTCCAATCGGAAGGAAAGTTGCCAATGATGATGACAT
upper sequence: GLYMA02G32100.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv08s0007g08690.t01 (Vitis vinifera), 3'ss of exon 5
-------------------------------------------------------gtaaggcaatttttctattatgtattccagtatttctgttctt--catctgcaattttttgtttttaactt----cataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
||| |||| | | | | | |||| ||||| ||| || |||| | | || | | |||| | | || |||||||||||||| | | ||||||| ||||||||||| || |||||||| ||||||||||||||||||||||| || ||||| | || |||||| |
gtaagagcacatgcattaataacttgctgatgttagcttcgcttttagtacttatgtatt-caatctctgaacagagctcatttgcattttcattcttaacatttgtaattgctactcttcattcattaacgtaaatgatgtttgcaatgccagATGATGGAAAGCTGGTTGCTGAGTCTGACTCAGGTGAATTCTGGGTCCTGTTTGGTGGTTTTGCTCCCATTGGCAAAAAGGTTGCCACCGAAGATGATGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttcatctgcaattttttgtttttaacttcataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
ttttaac putative branch site (score: 2)
tctatccc putative PPT
aattttttgtttttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggcaatttttctattatgtattccagtatttctgttcttcatctgcaattttttgtttttaacttcataaaatctatcccacattccagATGATGGAAAATTAGACACTGAGTCAGACTCAGGTGAGTTTTGGGTCCTCTTTGGTGGTTTTGCTCCCATTGGGAAGAAGGTAATTAGTGAGGATGATAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG