Sequence
atgc intronic sequence ATGC exonic sequencegttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os02g43470.1 (Oryza sativa), 3'ss of exon 3
----gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
|| |||| | | |||| | || | | || | | | | | || | || || ||||||| | || | ||| | || | | |||||| ||||||||||| || ||||||||||||||||| ||||| || || || || ||||| || ||||||||||||
gtgagtcatccaattcc--atctgccttataatttatcatctgctg---------tcttcatactctgcttcttctttacat--gtttctgaaaattttattttcaactgtcacagACCATGGCATGGATACTAGATGAATACTCAAAGTTCCATGGCCACTCCCCAGCTGTTGTCACGGGAAAGCCAATT
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G427097_T01 (Zea mays), 3'ss of exon 3
gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttacttt--ccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
|| | | || |||| | || | | || |||| ||| | || |||| | ||| ||||||| ||||||||||| |||||||| ||||| || |||||||| || || || ||||| || || || ||||||||
-----------------------------gtaggcctaacattgcttttgttatttttttttgtatgctcagctatcttgtttttcatttgtaccttttatgcaattgtgacagACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATA
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G427097_T02 (Zea mays), 3'ss of exon 3
gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttactt--tccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT-------------------------
|| | | || |||| | || | | || |||| ||| | || |||| | ||| ||||||| ||||||||||| |||||||| ||||| || |||||||| || || || ||||| || || || ||||||||
-----------------------------gtaggcctaacattgcttttgttatttttttttgtatgctcagctatcttgtttttcatttgtaccttttatgcaattgtgacagACCATGGCATGGATGCTGGATGAGTACTCGAAATTTCATGGTCACTCCCCAGCAGTCGTCACTGGGAAGCCAATAGTAAGTGAAAAAATGTGGCAGCAAG
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G15740.1 (Glycine max), 3'ss of exon 4
gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttactttcct--tactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
| |||| | | | ||| | | | | || | | | | | ||| || || | | | ||||| | | || || ||||||| |||||||||||||| |||||||| |||||||||||||||||||||||||||||||| ||||| ||||| |||
--------gtactgatttcacaacacagtacatttctgtccatttattttatctaaaaaat---agcattcaatagtttcatatatcctttcttattggtccactgtttgacagACCATGGCATGGATTCTTGATGAATATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATT
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G05460.1 (Glycine max), 3'ss of exon 3
gttttccattcctgaatctaatatgtagtg-tgtcctttccaggaa---aaaaaatattgactctttgacctttctttaacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
| |||| | | | |||| | |||| |||| | | ||||| | | | |||| | | || | || ||| | | || |||||| |||||||||||||| ||||| || |||||||||||||||||||||||||||||||| ||||| ||||| |||
--------gtactgatttcacaacatagtactttcctgtccatttattttataaataatagcattcaatagtttcatatatcct--ttctcattggtccactgttgtttc--acagACCATGGCATGGATTCTCGATGAGTATTCAAAGTTTCATGGGCATTCACCTGCAGTTGTGACAGGGAAGCCTATT
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G04090.1 (Glycine max), 3'ss of exon 3
gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
| || ||| | || | | | | | | || || ||| |||| || || || | | || || ||| ||||| |||||||| ||||| || |||||||||||||| |||||||| |||||||| || || ||||| ||
----------------------------------caatcgtagaatttacatttgcatttgctaatgtatccctactttg--ttttcctatcattcgtttactatttcactgacaatggcttggattcttgatgagTATTCAAAGTTTCATGGACATTCACCAGCAGTTGTGACTGGGAAGCCTTTT
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G41310.1 (Glycine max), 3'ss of exon 3
---------gttttccattcctgaatctaatatgtagtgtgtcc----tttccaggaaaaaaaatat-tgactctttgacctttctttaacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
|| ||||| | |||| | | || ||| | || | | ||| || || | | ||| | || || ||||| || ||||| | |||| |||||| ||||| |||||||| ||||| || || ||||||||||| |||||||| |||||||| || || || || ||
gttctgatttaattatattcccttacttaatttctggtttgtgcccatttcttatgtaaaccaacatctagcagtttcattcactatt--ctatcattttcattcgtttactatttatttc-acagACAATGGCTTGGATTCTTGATGAGTATTCTAAGTTTCATGGACATTCACCAGCAGTTGTGACTGGGAAACCTATA
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ36430 (Selaginella moellendorffii), 3'ss of exon 3
gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttcttt--aacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
||||| ||| | | | | ||| | | || ||| | | || | | ||| | | || || ||| ||||| ||| || | || | |||||| ||||| |||||||||||||| ||||| |||||||||||| | || || ||||| || || ||||||||| ||
gtttttttttc---acttttttttgt--tctttctttt-----------atttttcatttttttgtttcttttacaaagttggatttttatttttttggtttc----ttcacagACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTT
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: EFJ06181 (Selaginella moellendorffii), 3'ss of exon 3
gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttactttccttactctcgatt-tggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
|| ||| | | | || | | |||| ||| | || | |||| || | | | || | |||||| ||||| |||||||||||||| ||||| |||||||||||| | || || ||||| || || ||||||||| ||
-------------------------------gtttttttctttttcttttgttctttctttcttttctttttttg--caaagttggattttcattttttttgtttcttcacagACCATGGCTTGGATTCTGGATGAGTACTCCAAGTTTCATGGGTACTCTCCAGCAGTAGTCACTGGAAAGCCACTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctttgacctttctttaacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
tccttac putative branch site (score: 2)
tttaacttgaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttccattcctgaatctaatatgtagtgtgtcctttccaggaaaaaaaatattgactctttgacctttctttaacttgaattttactttccttactctcgatttggacagACGATGGCATGGATTCTGGATGAATACTCAAAGTTTCATGGGCATTCACCTGCAGTTGTTACAGGAAAGCCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG