Sequence
atgc intronic sequence ATGC exonic sequencegtaagtcccacatatttctgttgatgtgctctagtcaatcagaaatcattaatgactcatttcaagcagGGGCTGAGGTGGATGGAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02550.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os01g18360.2 (Oryza sativa), 3'ss of exon 2
------------------------------------gtaagtcccacatatttctgttgat---gtgctctagtcaatcagaaatcattaatgactcatttcaagcagGGGCTGAGGTGG------ATGGAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
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taattcaattttcatgtggtccaatctcacctcgtcatgatatacacatggcgatggttgtcgggtgttgtatataatcatatatgtttgata--tgattagATGCTGATGTTATGGAGTGCCATCAACAAGTTCCTGGCCAGAAGGCTGCCCATGTCCTCACCTATGAAGACCAGGACGGGGACTGGATGATGGTTGGGGA------------
upper sequence: Vv07s0005g02550.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G074742_T01 (Zea mays), 3'ss of exon 2
-----------------------------------gtaagtcccacatatttctgttgatgtgctctagtcaatcagaaatcatta-atgac-tcatttcaagcagGGGCTGAGGTGGATG------GAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
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actctcagacacgtaaaaaagtgttgacaagtaaaaaaaaatgaaaggagtattgcaaatgcttgccggtcgctctataataaatatgtgatatgattagATGCTGACGCTGTGGAGTACCATCAGCGGGTTCCTCACGAGAAGGCCGCGCATGTTCTCACCTATGAAGACCATGATGGAGACTGGATGATGGTTGGGGA------------
upper sequence: Vv07s0005g02550.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM5G853479_T01 (Zea mays), 3'ss of exon 1
-------------------------------------------------------------------------gtaagtcccacatatttctgttg-atgtgctctagtcaatcagaaatcattaatgactcatttcaagcagGGGCTGAGGTGGATG------GAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
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gtaagtatatatgcatcgtctagctagctaatacgttcattattaattaccacagatttgaattgtttgatttttaaacccaaggcaatggtatcacatcttgcctgccatgtcataatattgtattgtatgattagTTGCTGATGCTATGGAGTACCATCAACGAGTTCCTCACGAGAAGCCTGCACATGTTCTCACCTATGAAGACCGGGATGGAGACTGGATGATGGTTGGGGA------------
upper sequence: Vv07s0005g02550.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G01010.1 (Glycine max), 3'ss of exon 2
---------------------------gtaagtcccacatatttctgttgatgtgctct---agtca-atcagaaatcattaatgac-tcatttcaagcagGGG---CTGAGGTGGATGGAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
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gtaaagtctaatcctatatattctctcatagttgtttttgctttgtgtatagcttctttgttagtaacattataacaagggaatgttgctgttttgaacagGGGGAACTGAAATGGACGGAGT---GCAACCAGATAGGTGCCATGTTCTAACTTATGAAGATGGAGAAGGAGATTTGATTATGGTTGGGGATGTCCCTTGGGA
upper sequence: Vv07s0005g02550.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G46990.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------gtaagtcccacatatt------tctgttgatgtgctctagtcaatcagaaatcattaatgactcatttcaagcagGGGCTGAGGTGGATGGAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
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aggtagagtttatatattgcgcagtgtgtaagtactgtgtaatgggtaaattgtaaaaatgatgaaaactgatgggaattg--aaaaaatggaaatatatagGGGCTGAAGAAGA---AGACATGTGCAATGAGAAGAGTCACGTGCTAACGTACGCAGATAAGGAAGGTGACTGGATGATGGTTGGAGATGTTCCTTGGGA
upper sequence: Vv07s0005g02550.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G62100.1 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------------------------gtaagtcccacatatttctgttgatgtgc-tctagtcaa--tcagaaatcat--taatgactcattt---caagcagGGGCTGAGGTGGATGGAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
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gtaagtatctacacacacttaattacatctttgcatgtagacttagttaatatttatatttgttatacctctctttgcatgtatatagttaagaccaaaactaatggcaataaaaaaattgtgaaaatagGGGCTGAAGAAGA---AGATATGTGTAGTGAGAAGAGTCACGTGCTAACGTACGCAGACAAAGAAGGTGACTGGATGATGGTTGGAGATGTTCCTTGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttctgttgatgtgctctagtcaatcagaaatcattaatgactcatttcaagcagGGGCTGAGGTGGATGGAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
cattaat putative branch site (score: 3)
ctcatttc putative PPT
aaatcattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtcccacatatttctgttgatgtgctctagtcaatcagaaatcattaatgactcatttcaagcagGGGCTGAGGTGGATGGAGTTCTGCATTCTGAGAAATGCCATGTGCTAACATATGAAGACAAGGAAGGAGACTGGATGATGGTTGGGGATGTTCCTTGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA