Sequence
atgc intronic sequence ATGC exonic sequencegtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os06g50300.1 (Oryza sativa), 3'ss of exon 11
gtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC---
| | | | | ||||| || | | | || | |||| | || || | | | | | | | || | |||||| ||||| |||| || ||||| || || |||||||| |||||||||||||||||||| || || | || | || || |||||||| ||
------------------------------------------------------------------------------------------gtaacaagttctctgtggatc------acaggtcatatactgttatttatgatgtaattctcaca-----taatcttc--tgtact-cagATGAAGAAAAA---AGTGCAATGGAGGAGAAAAAGGGCCAGTATGCCAAGTTCTGGAATGAGTTTGGAAAATCAGTCAAGTTGGGCATCATTGAAGACGCAAC
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G399073_T02 (Zea mays), 3'ss of exon 13
gtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC---
| | | || | ||| || || | ||| || |||||| | || || | || | | | | | | | || | |||||| || || | ||| || |||||||| || ||||| || ||||||||||||||||||||||| || || || || ||||| |||||||| ||
----------------------------------------------------------------------------------gtaatgtctttccccccctgctgtgaatgcaagtcaca-----tgctctatatttgtcattacaat----gctaaaagtaggaacaactgtaat-cagATGAAGAGAAA---AATGAGATGGAGGAGAAGAAGGGCCAGTACGCCAAGTTCTGGAATGAGTTTGGCAAATCAATCAAGCTGGGTATCATTGAAGACGCAAC
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G141931_T02 (Zea mays), 3'ss of exon 11
gtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC---
| || | | ||| || || | ||| || | |||| | ||| || | | | | || || ||| |||||| || || || || || |||||||| || ||||| || ||||||||||||||||||||||| || || || || ||||| || ||||| ||
------------------------------------------------------------------------------------gtaagattgggttttccgcagtgaatgcaagtcaca-----tactctgtaattatctttaaagtactgaa-aagatttttctctaat------cagATGAAGAGAAA---AGCGAGATGGAGGAGAAGAAGGGCCAGTACGCCAAGTTCTGGAATGAGTTTGGCAAATCAATCAAGCTGGGTATCATCGAAGACGCGAC
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G40320.4 (Glycine max), 3'ss of exon 11
gtatggtgtcgttaat-gtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatgg-attctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatat-attgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC---
||||||| ||||| || | | || ||| || | ||||||| | | || | ||| | |||| || | ||| || ||| | | | | ||| ||| | |||| | | | | | ||||| |||| | | || ||| ||| ||||||||||||||||||| ||| | |||||||||||||||||||| || ||||| ||||||||||| || || |||||
gtatggt----ttaatagttatgagtttcatctg--ttggaatccctatttttttatgggctaaggttgacc---aaaacacgtgtaattg-tgtttgctttgttataccatttcaaaatgtaaggtgtttcttgaattctgttcattgactttgt--acttccatcttaaatattgatgcaca-gAAGATGCATCCTCTGACAATGATGAGAAGAAAGGTCAATATTCTAAGTTCTGGAATGAGTTTGGTAAATCCATTAAACTTGGTATCATCGAGGATGCCAC
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA14G40320.3 (Glycine max), 3'ss of exon 11
gtatggtgtcgttaat-gtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatgg-attctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatat-attgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC------
||||||| ||||| || | | || ||| || | ||||||| | | || | ||| | |||| || | ||| || ||| | | | | ||| ||| | |||| | | | | | ||||| |||| | | || ||| ||| ||||||||||||||||||| ||| | |||||||||||||||||||| || ||||| ||||||||||| || || |||||
gtatggt----ttaatagttatgagtttcatctg--ttggaatccctatttttttatgggctaaggttgacc---aaaacacgtgtaattg-tgtttgctttgttataccatttcaaaatgtaaggtgtttcttgaattctgttcattgactttgt--acttccatcttaaatattgatgcaca-gaagATGCATCCTCTGACAATGATGAGAAGAAAGGTCAATATTCTAAGTTCTGGAATGAGTTTGGTAAATCCATTAAACTTGGTATCATCGAGGATGCCACCAA
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA17G37820.1 (Glycine max), 3'ss of exon 11
-gtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttt---------tctcccagaa---gcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaac---tgttgctgctctctcatttctcttgccatctttat--tgatgttgagttccaatat-attgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC--
||||||||| | | | | | || | | | ||| | | || | | | |||||| | | | | ||| | | | || | ||| || || | ||| | || ||| ||| | |||| | | | | | ||||| |||| | | || | ||| ||| || |||||||||||||||| ||| | |||||||||||||||||||| || ||||| ||||||||||| || || |||||
ggtatggtgtaataattatgagtttcatctgttggaatccctatttttttatgggctaaggtttaccagaactcgtgtatcagtctagaatacttgtcttgttgtgtttgctttgtcataccttttcataatgtaagaggcgtttcttaaattctgttcattgactttgtacttccatcaatattaaatattgatgcaca-
upper sequence: Vv18s0001g14500.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT4G24190.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC
| ||| || ||| || ||| | | ||| | | || | | | || | || | ||| | || ||||| | | || | |||| || | |||||||| || ||||| |||| | ||||||||||| ||||| || |||| |||||||| |||||||||||||| | ||||| ||||| ||||| |||||
-------------------------------------------------gtattccataaaacaagtttctt---ggtatcaatccact-ttgaccgttccact-----tttttttaccatttggtagcttcatctttctgaaacatggtctaagcttattgacttgt--tggcacgcagATGTGGAGAAGTCTGGTGAGAACGATGAGAAGAAGGGTCAATACACAAAATTCTGGAACGAGTTTGGCAAGTCTGTCAAACTAGGTATCATTGAGGATGCMapped 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|161715138|gb|FC064271.1|FC064271EST: TAAGATCGCCGATGAGGATCCTGATGAGTCTAATGATAAAGACAAGAAAG ATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGT
genomic: TAAGATCGCCGATGAGGATCCTGATGAGTCTAATGATAAAGACAAGAAAGgtatggtgtc ... tatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgctctctcatttctcttgccatctttattgatgttgagttccaatatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC
tattgat putative branch site (score: 3)
aatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggtgtcgttaatgtcacaatcttgttctaacttccagaaaatatttttctcccagaagcaatttgcttttaaattttaattgattgctgcctatcttgcaatggattctagtaactgttgctgctctctcatttctcttgccatctttattgatgttgagttccaatatattgcagATGTTGAAAAGTCCAGTGATGATGATGAGAAGAAAGGTCAGTATGCAAAGTTCTGGAATGAGTTTGGCAAGTCCATAAAACTTGGTATTATTGAAGATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG