Sequence
atgc intronic sequence ATGC exonic sequence...cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatcatctctacactcatcaattgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g09200.1 (Oryza sativa), 3'ss of exon 3
-cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatcatctctacactcatcaa--ttgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
||| ||| | | ||| ||| ||| | | | || | | | | | || | | ||| || | ||| || ||||||||||||||||||| ||||| || ||||| || ||||||| ||||| | |||||| || || || ||||||||||||||| |||||| | ||
ctgttgtaaactgact-tgtagggcttctcaa--gacctaatttagcaaaaagactgctaccttttatgatatgtttaacaacctttcatttatatctgtcagGTGGAACATGTTAGAGCGGAAAGAAACTTGCTGGCTGAAGTTGCTAGCCACTGCATTGTGAAGCTATACTATTCTTTTCAAGATTCGGAGTACCTTTATC
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G044531_T01 (Zea mays), 3'ss of exon 3
-----cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatcatctctacactcatcaattgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
|| | | | | || | | | | || | | | | || | || | || |||| | | ||| |||| || |||||||| ||||||||||||||||| || || || || ||||||| ||||| | |||||| || || ||||||||||| ||||||| ||||||| | ||
caagtcaaaatttgccttataaaaggggcagaggaagcactagtatgtttattttttatttc--ttttcatttggaggtaatattgttgagtttctaat---tagGTGGAGCATGTTAGAGCTGAAAGAAACTTACTGGCGGAAGTTGGTAGCCACTGCATTGTGAAGCTATATTATTCTTTCCAAGATGCTGAGTACCTCTATC
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G044531_T02 (Zea mays), 3'ss of exon 4
cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatcatctctacactcatcaattgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
| || |||||| | | | || |||| | | ||| |||| || |||||||| ||||||||||||||||| || || || || ||||||| ||||| | |||||| || || ||||||||||| ||||||| ||||||| | ||
-----------------------------------gtatgtttattttttat----ttcttttcatttggaggtaatattgttgagtttctaat---tagGTGGAGCATGTTAGAGCTGAAAGAAACTTACTGGCGGAAGTTGGTAGCCACTGCATTGTGAAGCTATATTATTCTTTCCAAGATGCTGAGTACCTCTATC
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G008513_T01 (Zea mays), 3'ss of exon 3
cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatc--atctctacactcatcaattgcgtttttacaac--atagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCAT---TTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
| ||| | || ||| ||| | | | | | | | ||||||| | | | || | | || ||| | ||||||||||||||||||||||||| || ||| | || ||||||| || ||| | |||||| || ||||| |||||||| ||||| |||||| | |
----aatcaaaattattctaatgtttatcaaatgacaataaaagaatagtttttgttcattatttgagagttgtgttaatggagtttattattatctctatcagGTGGAACATGTTAGAGCTGAAAGAAACTTGTTGGCCGAAGTTGCTAGTCATCACTGCATTGTGAAGCTTTACTATTCTTTCCAAGACACTGAGTATCTTT---
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G18820.1 (Glycine max), 3'ss of exon 3
-----------------------------cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatc--atct--ctacactc--atcaattgcgtt--tttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
| || | | ||| || | |||| || | || | ||||||| | ||| |||| ||| || | || || || || | ||| ||| || || |||| || ||||||||||||||||||||| | ||||||||||||| | | | | |||||| ||||| ||||| ||||||||||||| ||| |||| ||
gtgagttttcatattttcattaattgaatgaaagtttgttcttttcattcaacttat---tcttattagaatatttt-taaagtttcatcatctgatttgattattttctaattcatcgggtttatttccatcacagGTTGAGCATGTTAGAGCTGAAAGGAATGTACTTGCAGAAGTTGCCTGTGACTGCATTGTGAAACTCTATTACTCTTTTCAAGATGCTGAACACTTATATC
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G07610.1 (Glycine max), 3'ss of exon 3
-----------------------cagggtatactatttatatagatcttaccaatcgtc-tttgcatattttatgtagtatcattatc--atctctacactc----atcaattgcgtt--tttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
| | | | ||| | | || | | | | | || | ||| ||| | ||| |||| ||| || | ||| | || || | ||| ||| || || |||| || ||||||||||||||||||||| | ||||||||||||| | | |||||||| ||||| ||||| ||||||||||||| ||| |||| ||
gtgagttttcatattttcattaattgaatgaaatttttttcttt-tcattcaagttattattagaataattttttaagtttcatcatctgatttgaacattttctaattcatcgggttcatttccatcacagGTTGAGCATGTTAGAGCTGAAAGGAATGTACTTGCAGAAGTTGCGTGTGACTTCATTGTGAAACTCTATTACTCTTTTCAAGATGCTGAACACTTATATC
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G19400.1 (Arabidopsis thaliana), 3'ss of exon 3
cagggtatactatttatatagatcttaccaatcgtctt-tgcatatt----ttatgtagtatcattatcatctctacactcatcaattg--cgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
| ||| || | | ||| | || || ||||| | || ||| || || | | || | | | | |||||| ||||||||||||||||| ||||| ||||| || ||||||| || | | ||||| || ||||||||||| || |||||| || || ||||||
-----------------gtgagtctcac-agttatctcatttatgttatgattatgca-taaaatttcgggctttaagtatagtatctggttgatcgttctgaatagGTTGAACATGTTAGAGCTGAGAGGAACTTGCTAGCCGAAGTTGCTAGTGACTGTATTGTGAAGCTTTATTATTCGTTCCAAGATCCAGAATATTTGTACC
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ15996 (Selaginella moellendorffii), 3'ss of exon 3
cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatcatctctacactcatcaattgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
| || | | || | || || || | | | | | | | ||||||||||||| |||||||||||||||||||| || |||||||| | || | ||| || || || | || || |||||||||| |||||| | |||
---------------------------------------------gtaatttgttttccgtgtccctgctctacgtaacgctaatgatcgttt---acagGTGGAACATGTGAGAGCTGAAAGGAATTTGCTCGCGGAAGTTGATACTCACTGCATAGTGAAGCTGCACTACTCGTTTCAAGATGCCGAGTACCTATACC
upper sequence: Vv11s0016g01800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ07946 (Selaginella moellendorffii), 3'ss of exon 3
cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatcatctctacactcatcaattgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
| || | | || | || || || | | | || | | | ||||||||||||| |||||||||||||||||||| || |||||||| | || | ||| || || || | || || |||||||||| |||||| | |||
---------------------------------------------gtaatttgttttccgtgtccctgctctacgtaactctaacgatcgttt---acagGTGGAACATGTGAGAGCTGAAAGGAATTTGCTCGCGGAAGTTGATACTCACTGCATAGTGAAGCTGCACTACTCGTTTCAAGATGCCGAGTACCTTTACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttatgtagtatcattatcatctctacactcatcaattgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
cgttttt CT-rich tract
tatcattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagggtatactatttatatagatcttaccaatcgtctttgcatattttatgtagtatcattatcatctctacactcatcaattgcgtttttacaacatagGTGGAACATGTTAGAGCTGAAAGGAATTTGCTTGCAGAAGTTGACAGCCATTTCATTGTAAAACTTTATTATTCTTTTCAAGATGATGAGTACTTGTACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - accaatc
- - - - - - - - - - - - - - - - - -ctttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cactcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caattgc