Sequence
atgc intronic sequence ATGC exonic sequencegtacaagtttttcaaaaattctttcaactaggcatcagagacaatagtggattgaactgggcatgcgtgttaattcctatctagttgatgaagaaaatgagctatttgctaaatgtgctcctttcatcttgcagGAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCAGTTGAAACTTCTATATCATCCCACTTTGGTGGAATGAACTATCCATCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 21
gtacaagtttttcaaaaattctttcaactaggcatcagagacaatagtggattgaactgggcatgcgtgttaattcctatctagttgatgaagaaaatgagctatttgctaaatgtgctcctttcatcttgcagGAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCAGTTGAAACTTCTATATCATCCCACTTTGGTGGAATGAACTATCCATCTT
|| ||||| | | | |||| | | | | || || | ||| ||||| ||||| || | |||||||||||||| | ||||| || |||| || ||||| ||||| ||||||||||||||||| ||||||||||||||||| ||||||| ||| || ||
-------------------------------------------gtaa-ggattaagccag--atgcat-tgggtattaaactttatggtttg----------tatcacttaaatccattccttgcaa-taacagGAAGATGATGCAAAGTCATTGGGATCATCATCTCCAGATTCAACAGGATCAGTTGAAACTTCGATATCATCCCACTTTGGAGGAATGAGCTACCCTTCGC
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 21
gtacaagtttttcaaaaattctttcaactaggcatcagagacaatagtggattgaactgggcatgcgtgttaattcctatctagttgatgaagaaa---atgagctat-ttgctaaatgtgctcctttcatcttgcagGAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCAGTTGAAACTTCTATATCATCCCACTTTGGTGGAATGAACTATCCATCTT
|| || ||| | | | || | | ||| | || | | | | ||| ||| | | | || || | | | || | | |||||||||||||| | ||||| || |||| || ||||| ||||| ||||||||||||||||| ||||||||||||||||| ||||||| ||| || ||
-------------------------------------------gtaatg-attaagccag--atcccttttacatatgatgcattgggtattaaaatttatggtttgtatcacttaaattcattcctttaaataacagGAAGATGATGCAAAGTCATTGGGATCATCATCTCCAGATTCAACAGGATCAGTTGAAACTTCGATATCATCCCACTTTGGAGGAATGAGCTACCCTTCGC
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 22
lower sequence: AT2G07360.1 (Arabidopsis thaliana), 3'ss of exon 22
gtacaagtttttcaaaaattctttcaactaggcatcagagacaatagtggattgaactgggcatgcgtgttaattcctatctagttgatgaagaaaatgagctatttgctaaatgtgctcctttcatcttgcagGAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCAGTTGAAACTTCTATATCATCCCACTTTGGTGGAATGAACTATCCATCTT---
| | | | | || | ||| | | ||| | | | | | | | || | ||||| | || || |||||||| ||||| || |||||| |||| || ||||| || | |||||||| |||| || ||||| || |||||||||||||||||||| ||||| |
--------------------------------------gtatactgctagcttaatctgtcttcagg-----gctgtcatcaaaataacttaattctaggggtgttaga-aaatgacttttgttgtatttacagGAAGAAGATGCGAG---ATCAGGTTCATCGTCTCCAGATTCTGCTGGATCAGTGGAAAGCTCAATATCCTCTCACTTTGGTGGAATGAACTACCCATCATTGTMapped 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|161714032|gb|FC064107.1|FC064107EST: GTTATGATGATTTGTGGGCCAAAACACTCTTAGAGACATCGGAAATGGAG GAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCA
genomic: GTTATGATGATTTGTGGGCCAAAACACTCTTAGAGACATCGGAAATGGAGgtacaagttt ... catcttgcagGAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctagttgatgaagaaaatgagctatttgctaaatgtgctcctttcatcttgcagGAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCAGTTGAAACTTCTATATCATCCCACTTTGGTGGAATGAACTATCCATCTT
tgctaaa putative branch site (score: 2)
tgctcctttcatctt putative PPT
aagaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaagtttttcaaaaattctttcaactaggcatcagagacaatagtggattgaactgggcatgcgtgttaattcctatctagttgatgaagaaaatgagctatttgctaaatgtgctcctttcatcttgcagGAAGATGATGCCAGGTCATCAGGGACATCTTCCCCAGAGTCAACGGGATCAGTTGAAACTTCTATATCATCCCACTTTGGTGGAATGAACTATCCATCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA