Sequence
atgc intronic sequence ATGC exonic sequence...ttatatctgtatcccttaatatattttgaaaaatgtgttactattttcccttttgaaacttctctccatctactaactaatgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: LOC_Os02g53720.2 (Oryza sativa), 3'ss of exon 1
--------------------------------------------------------------------------------------ttatatctgtatcccttaatatattttgaa-----aaatgtgtt-actattttcccttttgaaacttctctccatctactaactaatgtagtt---------tgctaaacaacagTTACATAC--TCAA---------CACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
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gtgatgcatctgcagaggtcccagtccattgattttacccatcaatttcggtagctgtttggcaagtgtcctctcgtcacactcaaccttgcaaatgatctattacatgtctcagactattgcatatgttcgccctctacttgatagatgcatttggttgttaacagagtgatattattattttcctgtgatagATATCCATGCACTACCATCAAGTAATGTTCCTCCAAAGCTTGTAATCCTTCACATGAACATGGCATTCCTTGTGTACGAAGATATAATGAGGATGACTGA------------------
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GRMZM5G809695_T03 (Zea mays), 3'ss of exon 23
--ttatatctgtatcccttaatatattttgaaaaatgt-gttactattttcccttttgaaacttctctccatctactaactaatgta-gtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
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attcaactcagtattttattttgtaagttataactggtcgctaatagttgatgcta-gaacggcattgatatcatgttgttgatattcattctgtttgcagTGAGCA-ATGGTC--CACCCAAGCTGGTGATCCTTCATATGAACATGGCTCTTCATGTCTTTGATGATATAATGAGGATGACTGAGAACTTGAGTGAGAAATA
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GRMZM2G463904_T03 (Zea mays), 3'ss of exon 24
--------ttatatctgtatcccttaatatattttgaaaaatgtgttactattttcccttttgaaacttctctccatctacta--actaatgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
|| || | | | || || | ||| || || || | | | | || ||| || || || | | || || | | | ||| | | ||||| |||||||| |||||||| ||||| || |||| || || ||||| ||||| ||||| ||||||||||| || ||
cctgagttcagaattcaaatatgctgacaacttatgtgacttgtacggctgttaa----ttaaataatattactaatgcactgtgacagataaccttgcttcagCATCAAACA-ACATTCATCCC--AAGCTTGTGATCCTCCACATGAACATGGCCCTCTATGTATATGATGATATAATGAGGATGACTGAAAACTTGAGCGAAAA---
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA04G05910.1 (Glycine max), 3'ss of exon 16
ttatatctgtatcccttaatatattttgaaaaatgtgttactattttcccttttgaaacttc---tctccatctactaactaatgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
| | | | | | | ||| |||||||| | | || | | | | | ||| || |||||| |||||| | || ||||| ||||| |||||||||||||||||||| |||||||| || ||||||||||| ||||| |||||| | |||||||||||
-----------------------------gtactttatcttaactgtacctattgaaactgaagactgtaacatgctgattgttcttgcttgaaaattgtcagTTAATTACTCACCTCCAAAGCTAGTGATTCTTCACATGAATATGGCACTTCATGTGTATGATGATATCATGAGGATGACCGAAAACCTAAGTGAGAAGTA
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA17G34380.2 (Glycine max), 3'ss of exon 23
---ttatatctgtatcccttaatatattttgaaaaatgtgttactattttcccttttgaaactt---ctctccatctactaacta-atgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
| |||| || ||||||| | | || || ||| | ||| ||||||||| | | | |||| ||| || | ||||| ||||||| | ||| | || ||||| ||||| ||||| |||||||||||||| |||||||| || ||||||||||| ||||| |||||| |||||||||||||
tgccggattttgtagtgtttgatatattataa------tggtatcattctgcctattgaaacttaagttgacaagttactgactgcataagctatgctat-tgacagTTAATTTCTCCCCCCCAAAGCTAGTGATTCTTCATATGAATATGGCACTACATGTGTATGAAGATATCATGAGGATGACTGAAAACCTGAGTGAGAAGTA
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA06G05900.1 (Glycine max), 3'ss of exon 25
ttatatctgtatcccttaatatattttgaaaaatgtgttactattttcccttttgaaacttc---tctccatctactaactaatgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
| | | | | | ||| |||||||| | || | || | | | ||| || | ||||| | |||||| | |||||||| ||||| |||||||| |||||| |||| |||||||| || ||||||||||| ||||| |||||| | |||||||||||
-----------------------------gtacttcatcttaactgtacctattgaaactgaagatgataatatgctgattgttcatacttgaaaatcgacagTCAATTACTCACCTCCGAAGCTAGTGATTCTTCACATTAATATGACACTTCATGTGTATGATGATATCATGAGGATGACTGAAAACCTAAGTGAGAAGTA
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: GLYMA14G11220.2 (Glycine max), 3'ss of exon 24
ttatatctgtatcccttaatatattttgaaa--aatgtgttactattttcccttttgaaactt---ctctccatctactaactaatgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
| |||| || || |||| | | | | | ||| ||| | ||| || |||||| | | | |||| ||| || | | | ||||||| | ||| | || ||||| ||||| ||||| |||||||||||||| |||||||| || ||||||||||| ||||| |||||| | |||||||||||
-----tttgtagtgtttcatttattataatggtattttattatcattctgcctatttaaacttaagttgacaagttactgactgcataagctatgttattgacagTTAATTTCTCCCCTCCAAAGCTAGTGATTCTTCATATGAATATGGCACTACATGTGTATGAAGATATCATGAGGATGACTGAAAACCTAAGTGAGAAGTA
upper sequence: Vv04s0008g01970.t01 (Vitis vinifera), 3'ss of exon 24
lower sequence: AT2G26330.1 (Arabidopsis thaliana), 3'ss of exon 24
ttatatctgtatcccttaatatattttgaaaaatgtgttactattttccctt-ttgaaacttctctccatctactaactaatgtagtttgctaa--acaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
| || | | ||| |||| | | | | | | | | |||| ||| | | ||| || ||| |||| || || || ||||||||||| || |||||||| ||||| |||||||| || || ||||||||||||||||||||||| || || | |||||||||||
------------------gtctactctccaaaccactttacgaatgttcttcacctacaatgtaatccaatagttaatcctta-aatttcctggtgacatcagTAACTTATTCGACACCGAAGCTCGTCATCCTTCATATGAACATGGCACTCCACGTTTACGAGGATATCATGAGAATGACAGAGAATCTAAGTGAGAAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcccttttgaaacttctctccatctactaactaatgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
ttttgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatatctgtatcccttaatatattttgaaaaatgtgttactattttcccttttgaaacttctctccatctactaactaatgtagtttgctaaacaacagTTACATACTCAACACCGAAGCTGGTGATCCTTCACATGAATATGGCACTGCATGTGTACGAGGATATCATGAGAATGACGGAAAACTTGAGTGAGAAGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - cccttaa
- - - - - - - - - - - - - tgaaaaa
- - - - - - - - - - - - - - - - - - - - - - - -ccctttt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aactaat