Sequence
atgc intronic sequence ATGC exonic sequence...gtaatgaattaatgtatgtttattttttattaaaagaaaaatgatgagaaatgaaattctttccctgtgcatgactgttttctgatcatcttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: LOC_Os02g06300.1 (Oryza sativa), 3'ss of exon 21
-------------------gtaatgaattaatgtatgtttattttttattaaaagaaaaatgatgagaaatgaaa--ttctttccctgtgcatgactg---------ttttctgatcat------cttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
| ||| | || |||| |||||| || | | | | | | || ||| || | | | | | ||| ||| ||| |||||||| |||||||| |||||||| ||||| || | |||||||| ||||||||||| || |||||||| |||||||| ||||||||||| |||||
gtaagccttctccacaaccatctcagattcaaataagttttttttttcttttggggtgcttagccaaagctagtagctttattcactatcgccaattagagataagatgatatgaccatttgacatttcccaacagGCTGAGGGAAAGAAGAGAATGAAAGCAATAGGAAGGGTTGATGTTCCTCAAGAGGCATTTATGGCTGTGTTGAAACTAGAAAAGGAGGTGCTATGAAACA
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 12
----------------------------------------------------------------gtaatgaattaat-gtatg-----tttattttttattaaaagaaaaatgatgagaaatgaaattctttccctgtgcatgactgttttctgatc-----atcttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
|||| || | |||| |||| |||| || || | || |||| | | | || || || |||||| || |||||||||||||||||||| ||||||||||| || | |||||||| |||||||| || |||||||| || |||| ||| ||||||||||| ||||| ||
gtattcttagaaaaaaacgttgtttgaccccaaaaaaaagaacttagaaaataccattttgtgtataatacataagcagtatactggctttaagttttcatagaatacaagaaatgactagtagctctgttcaccaaaatccctttgagatctgatataataatacggcgaacagGCTGAAGGAAAGAAAAGGATGAAGGCAATAGGAAGGGTTGATGTCCCTCAAGAAGCATTCATGGCCGTGTTGAGACTGGAAAAGGAGGTGCTATGAAAGT
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 21
---gtaatgaattaatgtatgtttattttttattaaaagaaaaatgatgagaaatgaaattctttccctgtgcatgactgttttctgatcatcttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
| | | |||| |||||| | | || | || | | | | ||| || ||| | || || | || || |||||||||||||||||||| |||||| | ||||||||||||||||| || ||||| ||||||||||| || ||||||||||||||||||||| |||||
tttgcatcgtggaaatgcgaaattatttata--tgcaattgttttaatcctgattcatac-cttagattgctcataatagtattatcgtctgtctccaaccagGCTGAAGGAAAGAAAAGGATGAAGTCTATTGGTAAAGTTGATGTTCCCCAAGAAGCTTTCATGGCAGTTTTGAAACTTGAAAAGGAGGTAATATGA----
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 21
---gtaatgaattaatgtatgtttattttttattaaaagaaaaatgatgagaaatgaaattctttccctgtgcatgactgttttctgatcatcttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
| | | | ||||| ||| || | | || | || | | | | || || ||| | || || | || || |||||||||||||||||||| |||||| | ||||||||||||||||| || ||||| ||||||||||| || ||||||||||||||||||||| |||||
tttgcatcgtagaaatgtgaaattacttata--tgcaattgttttaattctgattcatac-ctcagattgctcataatagtattattgtctgtctccaaccagGCTGAAGGAAAGAAAAGGATGAAGTCTATTGGTAAAGTTGATGTGCCCCAAGAAGCTTTCATGGCAGTTTTGAAACTTGAAAAGGAGGTAATATGA----
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 21
lower sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 21
gtaatgaattaatgtatgtttattttttattaaaagaaaaatgatgagaa-atga--aattctttccctgtgcatgactgttttctgatcatcttcttct-----cagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
|| ||| | | ||| | |||| ||| |||| |||| | || || | || || | || | | ||||| | ||| ||||| |||||||| || || |||| ||||||||| |||||||| ||||||||||| || | ||||||||| || ||||| |||
-----------------gtatatctctctataagggcgaaatcttgatttcatgattgtatcttcagcggtttctgtgttccttaaaatgagtttttgttttgaacagGCGGCAGGTAAGAAGAGAATGAAAGCCATAGGTAGAGTTGATGTCCCTCAAGAAGCTTTCATGGCCGTTCTCAAACTTGAACGAGAAGTATTGTGACATCMapped 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|22010264|gb|BQ795298.1|BQ795298EST: GTGGGGACATCACAAGGAAAAAGAAATTGCTTAAGAAACAG GCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAA
genomic: GTGGGGACATCACAAGGAAAAAGAAATTGCTTAAGAAACAGgtccttactt ... ttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaaatgaaattctttccctgtgcatgactgttttctgatcatcttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
ttctgat putative branch site (score: 3)
ttttctgatcatcttc CT-rich tract
aaattcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgaattaatgtatgtttattttttattaaaagaaaaatgatgagaaatgaaattctttccctgtgcatgactgttttctgatcatcttcttctcagGCTGAAGGAAAGAAAAGAATGAAGGCAATTGGTAAAGTTGATGTACCTCAAGAGGCTTTCATGGCTGTCTTGAAACTTGAAAAGGAGGTATTATGATTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - tgtatgt
- - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - aaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgactgt