Sequence
atgc intronic sequence ATGC exonic sequence...gttttacaaaattgagattgtaaattcagaatatcttacaatgctgaatataggtttgacctgaatttgtggtgcatattctatgttaatggctttccagATGACAAAGGCTGATTTTGTTCGAAACAACCGAGGAATAGATGATGGAAAGGATTTACCAGAGGAATATCTTGGGGCACTTTATGACCAAATTGTTAAAA
Basic information
species | Glycine max |
transcript | GLYMA14G00230.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G365185_T01 (Zea mays), 3'ss of exon 4
gttttacaaaattgagattgtaaattcagaatatcttacaatgctgaatataggtttgacctgaatttgtggtgcatattctatgttaatggctttccagATGACAAAGGCTGATTTTGTTCGAAACAACCGAGGAATAGATGATGGAAAGGATTTACCAGAGGAATATCTTGGGGCACTTTATGACCAAATTGTTAAAA
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-----------------------------gtaaacaaatgataataagcata--tttgattcaagattagtttatttatgagatttccaatg---tgcagATGTCTAAATCTGACTTCATTCGCAATAACCGAGGAATAGATGATGGAAAGGATTTGCCAGAAACTTATCTGGGTACACTATATGACCAAATTGTCAAAA
upper sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G092586_T01 (Zea mays), 3'ss of exon 4
gttttacaaaattgagattgtaaattcagaatatcttacaatgctgaatataggtttgacctgaatttgtggtgcatattctatgttaatggctttccagATGACAAAGGCTGATTTTGTTCGAAACAACCGAGGAATAGATGATGGAAAGGATTTACCAGAGGAATATCTTGGGGCACTTTATGACCAAATTGTTAAAA
|| | | | ||| | | |||| ||| | || | ||| ||| ||| | | | | | || |||| ||| | | | |||||| | ||||| |||||| | || ||||| ||||||||||||||||| |||||||| ||||| || ||||| | || || |||||||| ||||| || |
gtatacttatgattttattatcatacgggaatgtct-ataaag--aaatttagtttt---ttaactctatcaaaggtaatctaagtt--ttcttgtgcagATGTCTAAGGCAGATTTTATGCGCAACAATCGAGGAATAGATGATGGGAAGGATTTGCCAGAAGATTATCTGAGTGCGCTGTATGACCAGATTGTCAACA
upper sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G38200.1 (Arabidopsis thaliana), 3'ss of exon 4
------------------------------------------------------------------------------------------gt-tttacaaaattgagattgtaa-attcagaatatcttacaatgctgaatata--ggtttgacctgaatttgtggtgcatattctatg-ttaatggctttccagATGACAAAGGCTGATTTTGTTCGAAACAACCGAGGAATAGATGATGGAAAGGATTTACCAGAGGAATATCTTGGGGCACTTTATGACCAAATTGTTAAAA
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gtttgtcttcttggctgtcacaatttattcaatccatgactgatagcttttggagtgtatgggcatgtgttaacttttttggctatttctgtgctcagaaaattgcttttgaaatattctaaattggagatgctttttggtgtaaaggtctttacagtgtatttaacgtctgctttctggtttatgacaatc-agATGACCAAGGCTGATTTTATCAGAAATAACCGAGGCATTGATGATGGCAAAGATCTCCCAGAAGAGTATCTTGGTGCGCTTTATGACCAAGTTGTCATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatataggtttgacctgaatttgtggtgcatattctatgttaatggctttccagATGACAAAGGCTGATTTTGTTCGAAACAACCGAGGAATAGATGATGGAAAGGATTTACCAGAGGAATATCTTGGGGCACTTTATGACCAAATTGTTAAAA
tgttaat putative branch site (score: 3)
ctttcc putative PPT
atattctatgttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttacaaaattgagattgtaaattcagaatatcttacaatgctgaatataggtttgacctgaatttgtggtgcatattctatgttaatggctttccagATGACAAAGGCTGATTTTGTTCGAAACAACCGAGGAATAGATGATGGAAAGGATTTACCAGAGGAATATCTTGGGGCACTTTATGACCAAATTGTTAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - caatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - acctgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtggtg