Sequence
atgc intronic sequence ATGC exonic sequencegtaatttttgccttaacttcatccactcactgataatactgtttggttaccaaactgtcctgcatttccaccagcatttaatttgaaaagaaaaatgacataatggattaatatacattcttaataagctagttgggtggctttctcattcacaattcatcattgggacatgtgtttgggcttgtacagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os07g10490.1 (Oryza sativa), 3'ss of exon 13
gtaatttttgccttaacttcatccactcactgataatactgtttggttaccaaactgtcctgcatttccaccagcatttaatttgaaaagaaaaatgacataatggattaatatacattcttaataagctagttgggtggctttctcattcacaattc-atcattgggacatgtgtttgggcttgtacagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
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-----------------------------------------------------------------------------------ttggtagatattcgtaatattggatgaa---acatatataa----ctgctcctgtaaaagcatgatcgacgatcccatgaactcataatctgctatcttgtttgcagGACTACATTGACAGCATGGAAGGGGCAACTCTCTCAGGCAGGAGAACCGCGGCCTACATCTGTGGTGCAGGAGAGGAGCTGCTCGCCCTCCGAAAGAAGC
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G454952_T01 (Zea mays), 3'ss of exon 13
gtaatttttgccttaacttcatccactcactgataatactgtttggttaccaaactgtcctgcatttccaccagcatttaatttgaaaagaaaaatgacataatggattaatatacat-tcttaataagctagttgggtggctttctcattcacaattcatcattgggacatgtgtttgggcttgtacagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
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---------------------------------------------------------------------------------------tggcgtctgaacaccttggaatgtttttttcctcctatcttgcaacatgcaaacatcggtaggacatggtacattggtcttatttgtgct---gtacatgcagGACTACATTGACAGCATGGAAGGAGCAACTCTCTCCGGCAGGCGAACGTCGGCCTACATCTGCGGTGCCGGGGAGGAGCTGCTGGCCCTCCGAAAGAAGC
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA10G30220.1 (Glycine max), 3'ss of exon 13
gtaatttttgccttaacttcatccactcactgataatactgtttggttaccaaactgtcctgcatttccaccagcatttaatttgaaaagaaaaatgacataatggattaatatacattcttaataagctagttgggtggctttctcattcacaattcatcattgggacatgtgtttgggcttgtacagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
||| || || | | ||| || | || | | | | |||| | | |||| | | | ||| | || | || |||| ||||| ||||| ||||| |||||||| |||||| |||| ||||| ||| |||| |||||||| ||||| || ||||||||||||| ||| ||| ||| ||||
----------------------------------------------------------------------------------ttgttcagcaa--ttgctgtatgttttctt---cagtttcactgcagtagtgaaatctaagttgcattgatgttgc-tcactttattat-tattattttttgttcagGACTACATAGACAGCATGGAAGGTGCAACCTTGTCTGGCAGACAAGCTTCGGCCTATATCTGCGATGCAGGGGAAGAATTAGTGGCATTGCGGAAGAAGC
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT3G04870.1 (Arabidopsis thaliana), 3'ss of exon 12
gtaatttttgccttaacttcatccactcactgataatactgtttggttaccaaactgtcctgcatttccaccagcatttaatttgaaaagaaaaatgacataatggattaatatacattcttaataagctagttgggtggctttctcattcacaattcatcattgggacatgtgttt--gggcttgt-acagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
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--------------------------------------------------------gtaacatttttcacttactatct--ttcagccagatc-----cccgatagctacaaatgcaagcaagaacagcctccaaattgtgtctgagaaatccgaaagatcagtgagaattttgtttctggacttgttacagGATTACATAGATAGTATGGAAGGAGCAACATTATCAGGGAGACAAGCTTCGTCATACATCTGTGATGCTGGTGAAGAACTAGCAGAGCTAAACAAGAAGC
upper sequence: Vv14s0030g01740.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: PP1S277_10V6.2 (Physcomitrella patens), 3'ss of exon 10
gtaatttttgccttaacttcatccactcactgataatactgtttggttaccaaactgtcctgcatttccaccagcatttaatttgaaaagaaaaatgacataatggattaatatacattcttaataagctagttgggtggctttctcattcacaattcatcattgggacatgtgtttgggcttgtacagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
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---------------------------------------------------------------------------------tttgccacg-----tatctggaaaattgaccataccatttcaacc-gctagatgttctgttaagagaaataatgtttctcattgagg--tgtgaaaatgctggaacagGATTACATTGACAGCATGGAGGGAGCGACTCTGTCAGGACGACAGACCTCTGCTCGCATCAACGAAGCAGGTCAATTTCTTCACGACCTGCGACAGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggtggctttctcattcacaattcatcattgggacatgtgtttgggcttgtacagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
aattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttttgccttaacttcatccactcactgataatactgtttggttaccaaactgtcctgcatttccaccagcatttaatttgaaaagaaaaatgacataatggattaatatacattcttaataagctagttgggtggctttctcattcacaattcatcattgggacatgtgtttgggcttgtacagGATTACATTGACAGTATGGAAGGAGCAACCCTGTCAGGCAGGCAAACTTCAGCCTATATTTGCGACGCGGGGGAAGAATTAGCAGCACTGCAGAAAAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG