Sequence
atgc intronic sequence ATGC exonic sequencegtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g33720.1 (Oryza sativa), 3'ss of exon 3
----gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattat-ccacat-gtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
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tctgttccgtccaatctatgcctttcaaaaaaaatgttttcaagtgctaatgtcctatccttactacacctcattggactcataaaaattgacttt--------------gcagGTTCCCATAAAATGGCCAAAAAGTCGTGATATTGTGTGGAAAGCAAATATTCCGCACACTCACCTTGCACATGAGAAGTCAGACCAGAATTGGATGATTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G067764_T02 (Zea mays), 3'ss of exon 3
--gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
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ggtttaacacgtccactgaccttccactatatactcatct--gaaattagttctgtttgaatggatc-cttg---ctgagttgtatcagatccactattt----tttcagGTTCCTATAAAATGGCCAAAAAGTCGTGATGTAGTGTGGAAAGCAAACATTCCACACACTCACCTTGCAAAAGAGAAGTCAGACCAGAACTGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G575696_T01 (Zea mays), 3'ss of exon 1
gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatatt-gttttcattatccacatgtac-ctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
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-------taataacacgtgccctgacagactg--accttccaatctaaaattagttctgtttgattgcatccttgctgagctgtatccgatccac-atttttttttccagGTCCCCATAAAATGGCCAAAAAGTCGTGATGTAGTATGGAAAGCAAACATTCCACACACTCACCTTGCAAAAGAGAAGTCAGACCAGAACTGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G107629_T03 (Zea mays), 3'ss of exon 4
gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatatt-gttttcattatccacatgtac-ctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
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-------taataacacgtgccctgacagactg--accttcctatctgaaattagttctgtttgattgcatccttgctgagctgtatccgacccacaattttttttc-cagGTCCCTATAAAATGGCCAAAAAGTCGTGATGTAGTATGGAAAGCAAACATTCCACACACTCACCTTGCAAAAGAGAAGTCAGACCAGAACTGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G32130.2 (Glycine max), 3'ss of exon 2
gtgagtctgtgctt-----aagttttttgaaat--attgggaccaaggaagtttatattgttttcattatccacatgtacctaaga--tgattctcttctgctgtgggcggtaaca--gGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
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gtgaaatttcactctccagggattgcttagtattagatggaactaagatagttcatagtgtatggaaaattttcttttgcttaagtatttagtttgttgtgttgttcttgataatatagGTTCCAGTCAAGTGGCCCAAAAGCAGAGACCAGGTGTGGAAGGCAAATATACCTCATACCCATCTTGCAACTGAAAAATCTGACCAGAACTGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G34890.2 (Glycine max), 3'ss of exon 3
--gtgagtctgtgctt---aagttttttgaaat-----attgggaccaaggaagtttatattgttttcattatccacatgtacctaag--atgattctcttctgctgtgggcggtaac--agGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
| | | | || | || |||| || ||| || ||| | || ||| ||| || | || | | | | |||| | | | | || || ||| | |||| |||| || ||||||||||| ||||||||||| |||||||||| || ||||||||||||||||| || |||||||| || ||||||||||||||||||||||
gtgacatttcattctccagagattgcttgatattattagatggaactaagacaattcatagtgtattgaa-attttcttttgcttaagcatttaatttgttgtgttgttcttgataacatagGTTCCTATCAAGTGGCCCAAAAGCAGAGACCAGGTGTGGAAGGCAAATATACCTCATACCCATCTAGCAACTGAAAAATCTGACCAGAACTGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G04370.1 (Glycine max), 3'ss of exon 2
--------------gtgagtctgtgcttaagttttttgaaa-tattgggaccaaggaagtttatattgttttcattatccaca----tgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
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gtgtctctcttttctctaggcattgcttctcttagatggaactatgaaagttaaataaatttggaa-gttttctgtgcttacagctttgagtgtcttatgctgttcttgatgataaattgattatagATTCCAATCAAGTGGCCCAAAAGCAGAGATCAGGTATGGAGGGCAAATATACCTCATACCCATCTTGCAACTGAGAAATCTGACCAGAGATGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G18630.1 (Glycine max), 3'ss of exon 2
--------------gtgagtctgtgcttaagttttttgaaa-tattgggaccaaggaagtt---tatatt-gttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
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gtggctctcttttcttcaggcgttgcttctcttagatgaaagtcatgaaactgtgaaagttaaataaatttggtaattttttgtgcttacagctttgagtgtcttatgctgttcttgatgataatagATTCCAATCAAGTGGCCCAAAAGCATAGATCAGGTATGGAGGGCAAATATACCTCATACCCATCTTGCAACTGAGAAATCTGACCAGAGATGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT1G04430.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
|| | || ||| ||| | | || || | | || || |||| || || | | | |||| | | ||| | |||| || || ||||||||||| || |||||||| ||||||||||| || |||||||| || |||||||||| ||||||||||| ||||||||||||||||
---gtgctatatttgc-tttcttgttttgctttgatttgtgattggt-tcctggttacattgtcttgatattgtt----ttgttctttgtattgatttgcgtt--tagGTTCCTATTAAGTGGCCTAAGAGTAGAGATGAAGTGTGGAAAGCAAACATACCTCACACTCACCTTGCAAAAGAGAAGTCTGATCAGAACTGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G14360.2 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
|| | | || || || | ||||| ||| | | | |||| || || ||| |||||||| | || | |||| || || || ||||| |||||||||||||| |||||||||| || ||||||||||| || |||||| ||||||||||||||| |||||||||||||
--------------gtgtctatcgatatgtt-------atacagttt-tatcgatatgattagttacgatgacataactgttttctcttccaatatg-----ttttagGTTCCGATTAAATGGCCAAAAAGCAGAGATGAAGTGTGGAAAGTGAACATACCTCATACTCATCTTGCACATGAGAAGTCTGACCAAAACTGGATGGTTG
upper sequence: Vv07s0005g03630.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G23300.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
|| |||| | | ||| |||| | || | || | || | | || | |||| |||| | || | |||||||||||||| ||||||||||| || || ||||||| || || |||||||| ||| | || ||||||||||||||| |||||||||||||
---------------------gtgtgttatttct-ctagctttgttgatatgat---cagtgtcttgacatattttgaa--gtttttttcta-tgtgaatgtgtctagATTCCAATCAAGTGGCCGAAAAGCAGAGACGAAGTTTGGAAAGTGAACATTCCTCATACTCACTTAGCGCATGAGAAGTCTGACCAAAACTGGATGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
attat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtctgtgcttaagttttttgaaatattgggaccaaggaagtttatattgttttcattatccacatgtacctaagatgattctcttctgctgtgggcggtaacagGTCCCAATCAAGTGGCCTAAAAGCAGAGATGAGGTGTGGAAAGCCAATATACCTCATACCCACCTTGCAACTGAGAAGTCTGACCAGAACTGGATGGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT