Sequence
atgc intronic sequence ATGC exonic sequencegtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G107101_T06 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os01g08700.8 (Oryza sativa), 3'ss of exon 10
gtatgccatac--ttcacagattatccttgcaaaattgtcaa-----gttgcctatgatacaaaattgtc-taac--cacatctttggttc--aactttttgttaactgtggca-ctttattttttg---tagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
|||| ||||| || | | | | || || | |||| | | || || ||| ||| || |||| ||||| | ||| || |||| || | ||| | |||| |||| || ||||||||||| || ||||||||||| |||||| ||||||| ||||||||||||||||||||||||||||| || ||||||||||| |||||||||| ||||
gtatatcatacatctctctggctgttgtttcagtgctatcaatcaagatgacacatcatgcaatattatcataacagcacattatgtgttttgaatattttattgattgtcatagctttgttttatgttttagCTTCCAAAGAACTGGATGCATCTTCATTTCCTGCGTGCTATTGGAACTGCAATGTCAATGAGAGCTGGTATCGCTGCTGATACGTCTGCTGCTTTACTTT
upper sequence: GRMZM2G107101_T06 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA10G36600.1 (Glycine max), 3'ss of exon 9
gtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
| || | | || | | | | | ||| | ||| |||| | || || | || | ||||| || ||| | ||||| | ||||||| | ||||||||||||| |||||||||||||||| || || ||||||||||| ||||||||||| || || |||||| | || |||||| | ||||
--------gatttaaaaccatacaataactgactgatgtgtttga--aagatttaaaaccatacaataac-tgactgatgtg--tttttcttttttgttatatgttatt----gcagCTTCCTAGAAATTGGATGCATTTGCATTTCTTGCGTGCAATAGGGACTGCAATGTCCATGAGAGCTGGTATAGCCGCTGATGCTGCAGCTGCTCTTCTTT
upper sequence: GRMZM2G107101_T06 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA20G30980.1 (Glycine max), 3'ss of exon 3
gtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
| || | | | || | ||| || | | ||| || ||| | ||||| | || | ||||| || |||| | | ||| || ||||||| | ||||||||||||| |||| ||||||||||| || || ||||||||||| ||||||||||| || || |||||| | || |||||| | ||||
-----caattatgtatgtgt-attgcagtgggattactaaact--ttgtga---aagatt-taaaaccaactgactgatgtg--tttttcttttctgttata---tgtttaatgcagCTTCCTAGAAATTGGATGCATTTGCACTTCTTGCGTGCAATAGGGACTGCAATGTCCATGAGAGCTGGTATAGCCGCTGATGCTGCCGCTGCTCTTCTTT
upper sequence: GRMZM2G107101_T06 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA09G07240.1 (Glycine max), 3'ss of exon 9
gtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
| || | || | || |||| || | | | || ||| || || || || | | ||| | | ||| | ||| || || | ||||||| | ||||||||||||| | |||||||||||||| || || ||||||||||| |||||| |||| | ||||||||| | || ||||| |||||||
atgtgt-gcatttggatgttttcatctgcagaaacattatgaaagct-tga-acccaactgactgattcagttttt---ttaccttctctctaaatg-----------ttaatacagCTTCCTAGAAATTGGATGCATTTTCATTTCTTGCGTGCTATAGGGACTGCAATGTCCATGAGATCTGGTGTAGCTGCTGATGCTGCAGCTGCATTGCTTT
upper sequence: GRMZM2G107101_T06 (Zea mays), 3'ss of exon 9
lower sequence: Vv18s0157g00020.t01 (Vitis vinifera), 3'ss of exon 10
gtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaa-attgtctaacca-catctttggttcaactttttgttaa---ctgtggcactttattttttg---tagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
||||||| | || ||| | | ||||| ||| | || ||| | || | | || |||| || ||| ||||| |||| || ||||||||| |||||||||||||||| ||||| ||||||||||| |||||||| || |||||||| ||| | ||||| || || ||||
-------------------------gaatgaaattgtggatttagaacagatttagacattgttcaactaatgaattcagttgtcatcaatgctcatatctaaattgcttttcttattgatatagCTCCCAAGGAACTGGATGCATTTGCATTTCTTGCGTGCAATTGGTACTGCAATGTCCATGAGAGCAGGGATTGCTGCAGATGCTGCTGCAGCATTACTTTMapped 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|20803064|gb|BQ294114.1|BQ294114EST: ATCTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGG CTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCA
genomic: AACTAGTTGAGCTACTTAGAGCAGCCGAAGATTATGCTTCTGGCATGCGGgtatgccata ... ttttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
tgttaac putative branch site (score: 2)
ctttatttttt putative PPT
actttattttttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgccatacttcacagattatccttgcaaaattgtcaagttgcctatgatacaaaattgtctaaccacatctttggttcaactttttgttaactgtggcactttattttttgtagCTTCCAAAAAATTGGATGCATCTGCATTTCTTGCGTGCGATTGGAACTGCAATGTCAATGAGAGCTGGCATTGCTGCTGATACAGCTGCTGCTTTGCTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT