Sequence
atgc intronic sequence ATGC exonic sequence...tgatatgttgtcatgtatgattatgctgaatatctggcactaagaacctttgtgtataacccactcacaattcttttttttttcttccccaataagccagGTTCCAAGTGAAGAAGAAACAGTTCTTTCGAAACTTCATTACTATTACACTGTTTGGTGCAGTTGGCACCTTGATCTCTTTTACTGTAATATCCCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G311165_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 3'ss of exon 2
tgatatgttgtcatgtatgattatgctgaat-atctggcactaagaacctttgtgtataaccca-ctcacaattcttttttttttcttccccaataagccagGTTCCAAGTGAAGAAGAAACAGTTCTTTCGAAACTTCATTACTATTACACTGTTTGGTGCAGTTGGCACCTTGATCTCTTTTACTGTAATATCCCTTG
|| || | ||| || | || || | | | | | | | | || || ||| ||||||| |||| | |||||||||||| ||||||||||| || || || |||||||| |||||||| |||||||||| |||| ||| | |||||||| | |||||| ||||| |
--taatcttccagtaggaaattctgttacatcatttaaagtttaacattagtcagcaaggtgaagcttactgttcctttttttctctttctttcctgagcagGTTCCAAGTTAAGAAGAAACAATTTTTCCGCAACTTCATGACTATTACGTTGTTTGGTGCGATTGGGACCCTAATCTCTTTCAGTGTAATTTCCCTCG
upper sequence: GRMZM2G311165_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA19G42900.1 (Glycine max), 3'ss of exon 2
----------------tgatatgttgtc--atgtatgattatgctgaatatctggcac-----taagaacc--tttgtgtataacccactcacaattcttttttttttc-----------ttccccaataagccagGTTCCAAGTGAAGAAGAAACAGTTCTTTCGAAACTTCATTACTATTACACTGTTTGGTGCAGTTGGCACCTTGATCTCTTTTACTGTAATATCCCTTG
| | |||| ||| || ||| | || | || |||||| | | || ||||||| | | | | || || || | | | | | || ||||||| || ||||| ||||||||||| ||| ||||||||||| ||||| |||||||| | ||||| || || || || || | ||| | | |
gtaaagttttcagcaccaactagctgtctaatgaatcattgt-ctaattaattggcaccccaatgaaaattattttgtgttttcctgatctctagttgttcttgtacttagagcaaggtatacatgattattccagGTTTCAGGTGAAAAAGAAACAGTTTTTTGTTAACTTCATTACCATTACCCTGTTTGGAGTTGTTGGTACATTAATAAGTTGTAGCATCATAACTTTCGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|32831753|gb|CD971431.1|CD971431EST: TTTATTTACCTGCTGCCGCCGATCATATTCAATGCAGG GTTCCAAGTGAAGAAGAAACAGTTCTTTCGAAACTTCATTACTATTACACT
genomic: TTTATTTACCTGCTGCCGCTGATCATATTCAATGCAGGgtatgggatt ... aataagccagGTTCCAAGTGAAGAAGAAACAGTTCTTTCGAAACTTCATTACTATTACACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctttgtgtataacccactcacaattcttttttttttcttccccaataagccagGTTCCAAGTGAAGAAGAAACAGTTCTTTCGAAACTTCATTACTATTACACTGTTTGGTGCAGTTGGCACCTTGATCTCTTTTACTGTAATATCCCTTG
cactcac putative branch site (score: 2)
ctcacaattctttttt CT-rich tract
aattcttttttttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatatgttgtcatgtatgattatgctgaatatctggcactaagaacctttgtgtataacccactcacaattcttttttttttcttccccaataagccagGTTCCAAGTGAAGAAGAAACAGTTCTTTCGAAACTTCATTACTATTACACTGTTTGGTGCAGTTGGCACCTTGATCTCTTTTACTGTAATATCCCTTG
- - atgttgt
- - - - - - atgtatg
- - - - - - - - - - - -tgctgaa
- - - - - - - - - - - - - - - - -ctggcac