Sequence
atgc intronic sequence ATGC exonic sequence...tgatttgtgatattttaagcttcagatactgtacagttgtagtgacaaactattcttggttgaaaaatgaaaagcttaaaatctgcatggtttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATATGAAAGTGGACTAGGTGTGAAGACCGTTTCATGGTCTCCTTGTGGTCAGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0013g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os10g41370.1 (Oryza sativa), 3'ss of exon 2
----tgatttgtgatattttaagcttcagatactgtacagttgtagtgacaaactattcttggttgaaaaatgaaaagcttaaaatctgcatggtttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATATGAAAGTGGACTAGGTGTGAAGACCGTTTCATGGTCTCCTTGTGGTCAGT
| || | | | || | || | ||| || | | || |||| | ||| ||| || | ||| | |||| || | ||||||||| || || || || |||||||||||||| | ||||| |||||||||||||||| |||||||||| || ||| | ||||| || ||||| ||||
gggttcatctcaacggatactaatctcttgttctactcttatgttgttgttagcagtttttggatttaaactgataatcctaaga---acatgatt-gtcacagGTTCTGATATATTCACCGGATGGGAGGTGCCTGTTCAAGTACTTAGCATATGAAAGTGGATTAGGTGTGAAAACTGTTGCGTGGTCACCATGTGGACAGT
upper sequence: Vv16s0013g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G33770.1 (Glycine max), 3'ss of exon 2
-tgatttgtgatattttaagcttcagatactgtacagttgtagtgacaaactattcttggttgaaaaatgaaaagcttaaaatctgcatggtttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATATGAAAGTGGACTAGGTGTGAAGACCGTTTCATGGTCTCCTTGTGGTCAGT
| || || |||| ||| || || || | | | || || ||| || || | || || | | || ||||| || ||||||| || || || ||||| || |||||||| | |||||||||||||||||||||||| |||| || || | || || |||||||||||||||||||
gttgcttttg-tattactcgctggttatgctataaattattgttggaaatttatgctgtatttacaattgcctaaaacttagtcatttatgtttgatatagGTTCTAATATATTCTCCAGACGGAAGGTGCCTTTTCAAGTATCAAGCATATGAAAGTGGATTAGGAGTTAAAAGTGTGTCCTGGTCTCCTTGTGGTCAGT
upper sequence: Vv16s0013g01510.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G33830.1 (Glycine max), 3'ss of exon 2
--tgatttgtgatattttaagcttcagatactgtacagttgtagtgacaaactattcttggttgaaaaatgaaaagcttaaaatctgcatggtttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATATGAAAGTGGACTAGGTGTGAAGACCGTTTCATGGTCTCCTTGTGGTCAGT
|| ||| ||| | ||| || || || | | | || ||| || || || | | | || ||||| || ||||||| || || || ||||| || |||||||| | |||||||||||||||||||||||| |||| | || | || || |||||||||||||||||||
gttgcttttgtataactc--gctggttatgctataaattattgtctgaaatttatgctgtatttgcaattacctaaaacttagtcatttatgtttgatatagGTTCTAATATATTCTCCAGACGGAAGGTGCCTTTTCAAGTATCAAGCATATGAAAGTGGATTAGGGATTAAAAGTGTGTCCTGGTCTCCTTGTGGTCAGTMapped 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|110700942|gb|EE078040.1|EE078040EST: CACCAGATGATAGTGCTATTGTTATCTGGGATTCGCCTCTTGAATACAAA GTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATAT
genomic: CACCAGATGATAGTGCTATTGTTATCTGGGATTCGCCTCTTGAATACAAGgtttccaaat ... tttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATAT
EST:
gi|110700943|gb|EE078041.1|EE078041EST: CACCAGATGATAGTGCTATTGTTATCTGGGATTCGCCTCTTGAATACAAA GTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATAT
genomic: CACCAGATGATAGTGCTATTGTTATCTGGGATTCGCCTCTTGAATACAAGgtttccaaat ... tttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caaactattcttggttgaaaaatgaaaagcttaaaatctgcatggtttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATATGAAAGTGGACTAGGTGTGAAGACCGTTTCATGGTCTCCTTGTGGTCAGT
ttgaaaaatgaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatttgtgatattttaagcttcagatactgtacagttgtagtgacaaactattcttggttgaaaaatgaaaagcttaaaatctgcatggtttggtacagGTTCTTATCTACTCCCCAGATGGGAGGTGCCTATCTAAGTATCAAGCATATGAAAGTGGACTAGGTGTGAAGACCGTTTCATGGTCTCCTTGTGGTCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaagc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcatgg