Sequence
atgc intronic sequence ATGC exonic sequencegtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM5G868588_T01 (Zea mays), 3'ss of exon 4
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
| || | | || | | || || | || || | |||||| ||| |||||| || || |||| | | |||||| ||||||||||| |||||||| || |||||||| || |||||||| ||||||| ||| | || | ||||||| ||||||||| |||||| |
-----gttggcaccctgtcaactttttaat---ataattggttttacctgtaagcatattg---ctag-----gaatttgtaatcacttttcctatactacgcagACAACCTATGAGAACTTCAGATATCGCTATGATCGGCGGGCCAACCCGTACAACATAGGGATCTTGAACAACTTCATGGAGATATTCTGCACCGCAGTCC
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G179002_T03 (Zea mays), 3'ss of exon 4
---------------------------------------------------------gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaatttt-ccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
||| || | | | | || | || | ||||| | | | |||| | | ||| || | || |||| || ||||||||| ||||||||||| ||||||||||| |||||||| || | ||| || ||||||| ||| ||| | ||||||| ||||||||| |||||| |
gttggtaccctgtcaacttttttaatatagttggttttacccgtaagcatattgctgataattggttagtttactcgtaagcatattgcta-----ggaatttgtaattactctcatgtgggagcctctggcattgggtctgcccttttcctatcctttgcagACAACCTATGAGAACTTCAGATACCGCTATGATCGGCGGGACAATCCGTACAACAGAGGGACCGTGAACAACTTCATGGAGATATTCTGCACCTCAGTCG
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G034833_T01 (Zea mays), 3'ss of exon 4
-----gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
| | | || || || | ||| | || || | | | | || || ||| || || | | | | ||| | ||| | |||| || |||||||| ||||| || || ||||||| |||||||||||| ||||||| ||| | || ||| |||| |||| || | |||| ||
gtaaaaaactgttcccaactcccaagaaggatgtattcatatccttgactgatga--agtatgctgcgcc-aattgctaa--tcagttgccctacctcggcctt--gtagACAACATATGAGAACTTCAGGTATCGCTATGATCAACGAGCCAACCCATACAACAGGGGAATCATGGTAAACATCAAACAGATCTTATTTACCACGATCC
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G05670.2 (Glycine max), 3'ss of exon 4
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattttccttc---tctattccatt-cttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
| | | | || ||||| || | | || | ||| | || |||| | | |||||| | ||||||||||| ||||| || |||||||||||||||||||| |||||||| || || || ||||||||| || | || ||||| |||||||| |||| ||||||||
-------------------------gtaagccc-tgttcg---ttttaatccacatgctctagcttttcagatgtatacagcttcatatttgctccattattcttgcagACTACATATGAAAACTTCAGATACCGATATGATCGGCGAGCCAATCCATATAATAAAGGAGTGTTGAATAATTTCAAAGAGATATTCTGCATCAGCATTT
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G27160.1 (Glycine max), 3'ss of exon 4
gtaacgggctcatcttcctaatgctatgattctgtagccgaaatt---ttaggtcaaaatattgtgcctaa-cagcagaattttccttc---tctattccatt-cttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
||| | | || || || || | | || ||| | || | |||| | | |||||| | ||||||||||| ||||| || |||||||||||||||||||| ||||||||||| || || |||||||| || | || ||||| |||||||| |||| |||||||
---------------------------------gtaagcacagttctttttaatccgcatgctctagctgttcagatgtatatggcttcatatttgctccattattcttgcagACTACATATGAAAACTTCAGATACCGATATGATCGGCGAGCCAACCCATATAATGAAGGAGTGTTGAATAATTTCAAAGAGATATTCTGCATCAGCATTC
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G26140.2 (Glycine max), 3'ss of exon 4
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacag---cagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
|||| | | || ||| | || |||| || |||| || ||| |||| | || ||| | | | | | | || || |||||||| |||||||| ||||||||||||||||||||||| |||||||| || |||| ||||||| | | || ||| |||||||| ||||||||||||
gtaatcagtcc---tttttaaaatctttatatagtagtataa--tttaaaattaagtatctatcctactggacttgcaactttatatttgtgtccattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACACAGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G07190.1 (Glycine max), 3'ss of exon 4
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacag---cagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
| ||| ||| | || |||| ||||| | || || ||| |||| | || ||| | | | ||| | || || |||||||| |||||||| ||||||||||||||||||||||| |||||||| || ||||| |||||| | | || ||| |||||||| ||||||||||||
---gtaatcattcctttttaaaatctttatatagtagt-ataatttaaagttaagctatctatcctacaggacttgcaactttatatttgtgttcattactgttacagACTACATATGAGAACTTCAGATACCGATATGATCGACGGGCCAACCCGTATAACAAGGGAGTGTTCAATAATTTCTTAGAGATATTCTGCACCAGCATTC
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G08200.1 (Glycine max), 3'ss of exon 5
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattttccttctctattccatt-cttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT--------------------------------------------
| | | | | | | | |||||| | ||||||||||| ||||| || |||| ||||||||||||||| |||||| || || || ||| ||||| || | || ||||| |||||||| | || ||||||||
----------------------------------------------------------------------gtatacaccttcatatttgctccattattcttgcagactacatatgaaaacttcaaataccgatatgatcggtgagccagTCCATATAATAAAAGAGTGTTGAATAATTTCAAAGAGATATTCTACATCAGCATTTCCTCTTCAAAGAATAATTTCAAGGCAATGGTGCCAAGAGAACCA
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G26935.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
||| | || | | | | | | || || | || | || | | | | || | | ||||||||||| || ||||||||| ||||| |||||||||| ||| |||||| | ||||| |||||||| | |||||||| || | ||||| ||| ||
------------------gtatgttgcgaccatccaatccccaccctctcttaaggaatcacgg-tatctctgtaaccattgatttatctt---tgttcttgcagACTACATACGAGAATTTCCGATACAGATATGATCGGCGAAGCAACCCACATAACAAGGGAGTGGTTAATAACTTCAAAGAAACATTTTTTTCCACAATCC
upper sequence: Vv14s0068g01530.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G41060.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattt--tccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
| | | || | | | || | || | | | | | ||| || || | || | || || || ||||||| |||||||||||||||||| | |||||||| | |||||| | |||||||||||||| | |||||||| || || |||| | ||
--------------------gtaccctaatcatttgcctct--ttctgaaaaaacctctctcattcgatatgcgtgtttaatcgtttgatctttctttattctgtagACTACATATGAGAATTTCAGATACAGTTATGATCGGCATAGCAACCCACATAACAAAGGAGTGGTTGATAACTTCAAAGAAATCTTTTTTTCTCCAATACMapped 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|110699641|gb|EE076815.1|EE076815EST: TTGTCGGTGTCCTAACTGCATTCCATTTATATCTGATCAGTACAAATCAG ACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTAC
genomic: TTGTCGGTGGCCTAACTGCATTCCATTTATATCTGATCAGTACAAATCAGgtaacgggct ... tcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTAC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaaatattgtgcctaacagcagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
gcctaac putative branch site (score: 2)
ttttccttctctattc putative PPT
agaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacgggctcatcttcctaatgctatgattctgtagccgaaattttaggtcaaaatattgtgcctaacagcagaattttccttctctattccattcttttgcagACTACCTATGAGAATTTCAGATACCGATATGATCGACGAGCCAACCCCTACAACAAAGGAGTGGTGCAGAACTTCAAGGAGATATTTTGCACCAGCATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT