Sequence
atgc intronic sequence ATGC exonic sequencegtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagatctggatcatttcattctctctccctctttttttttcccttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os07g14850.1 (Oryza sativa), 3'ss of exon 3
gtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagatctggatcatttcattctctctccctctttttttttcccttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
| || ||| || | | | ||| || | | || | | | || | | || | | | | | ||| | |||||||||||| ||||||||||| || |||| ||| | || || || || ||||| ||||| || |||||||| ||||||||| ||||| ||||| || ||
-------------gtgggtgatctggtttctggttgga----------atctggttagcttctgctgctggtggtgtgagttgct--gatcgatgtgcttggtgtttggt-----------tgcagTGCAACCGAGATCCATGGACCCGTCCAAGGATCTCGCCGCCTACGGGTACGGGAGTGTGGCATGGAAGGAGAGGATGGAGGGCTGGAAGCAGAAGCAGGA
upper sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G025231_T03 (Zea mays), 3'ss of exon 4
gtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagatctggatcatttcattct-ctctccctctttttttttccc---ttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
| | ||| || ||| | ||| | | | | | |||| | | || | | | || | | |||| || ||||||||||||| || ||||| || |||| ||| | ||||||||||| || || ||||| |||||||||||| |||||||||||||||| |||| ||||||
------------------------------------------gtatgtatctggatgatcatca---gccaaaacatagttgtggtcatggtgccctgaatgtaactgattaacggttgttgtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAACGGATGGAGAATTGGAAGCAGAGACAAGA
upper sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G082580_T01 (Zea mays), 3'ss of exon 2
gtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagatctggatcatttcattctctctccctctttttttttccctttt----gttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
| | | || ||||||| | | | | || | | ||| || ||| | || || | || ||| ||||||||||| ||||||||||| || |||| ||| ||||| || || || ||||| || || ||||||||||||||||||||| ||||| ||||| || ||
------------------------------------gtgcgtgattgacgctgtttgatgttggaatcttccagtgcgaat-gcccaaatgtctacccatctgctgattaccgtcttgctggttccgcagTGCAACCGAGATCCATGGACCCGTCCAAGGATTTGGCCGCCTACGGCTACGGCAGCGTGGCTTGGAAGGAAAGGATGGAGGGCTGGAAGCAGAAGCAGGA
upper sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G028353_T02 (Zea mays), 3'ss of exon 4
gtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagatctggatcatttcattctctctcc----ctctttttttttcccttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
||| || || ||| | ||| | | | | | |||| | || ||| || | | | || || ||||||||||||| || ||||| || |||| ||| | ||||||||||| || || ||||| ||||||||||| || ||||||||||||| |||| || ||
-------------------------------------gtatgtgtttggtttggatgatcatca---gccaaaacttagttgtggtcatggtgtcctgaatgtacttggttaatgtttgtggtgttccagTGCAACCCAGGTCTATGGACCCATCCAAGGATCTTGCTGCATATGGGTATGGTAGTGTTGCTTGGAAGGAGCGGGTGGAGAATTGGAAGCAGAGGCAGGA
upper sequence: Vv18s0122g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G113137_T01 (Zea mays), 3'ss of exon 4
gtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagat--ctggatcatttcattctctctccctctttttttttcccttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
| | | | | | | | || | |||| | | ||| || | | || | | | | |||||||||||| || || ||||| || |||| ||| | || |||||||| ||||| || ||||| |||||||| |||||||||| ||||| ||||| || ||
------------------------------gtgcgtgttctcatcgctatcagctaaccattcggctgccatggctacctcctcaacacaatacagtacaatcagataacggcttgtgcgacctgcagTGCAACCGAGGTCTATGGACCCTTCCAAGGATCTCGCCGCATATGGCTACGGGAGCGTAGCATGGAAGGAGAGGATGGAGAGCTGGAAGCAGAAGCAGGAMapped 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|56408083|gb|CX016335.1|CX016335EST: TGGAGGCAAAAGAATCCACCCCCTTCCTTTCTCAGATCCTAACCTTCCAG TGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATGTGGATACG
genomic: TGGAGGCAAAAGAATCCACCCCCTTCCTTTCTCAGATCCTAACCTTCCAGgtaattcttc ... tgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agatctggatcatttcattctctctccctctttttttttcccttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
tttcattctctctccc CT-rich tract
tcttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcttctggattagttctctacttccctactcttccctcctttcacctgtttgcccattacttgccgagatctggatcatttcattctctctccctctttttttttcccttttgttttgcagTGCAACCCAGATCCATGGATCCCTCCAGGGACTTGGCTGCATATGGATACGGAAGTGTAGCTTGGAAGGAAAGGATGGAGAATTGGAAACAGAAACAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA