Sequence
atgc intronic sequence ATGC exonic sequence...ataagaggcatccacaaaagcagcctcagacaacgcacatcaactaacttcagttcaagtttttaaacagatctattaataagtacttatgttgctgcagCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g43576.1 (Oryza sativa), 3'ss of exon 5
ataagaggcatccacaaaagcagcctcagacaacgcacatcaa--ctaacttcagttcaagtttttaaacagatctattaataagtacttat-gttgctgcagCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
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----gtttgatctttga--gcaacttt-gccagcgctttttatatcctcctggacttcctttgttcttgttgttgtatcatccaatgctccttgcttatacagCCAACAGAAAGACACTTGCGGGTCAGAGAATATGTGACTCCTGAGAAGTTTGATTTCTGGAAGGAGTATGGGGAATCTCTGGGTTTTCTTTATGTTGCTA
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA20G24430.1 (Glycine max), 3'ss of exon 5
ataagaggcatccacaaaagcagcctcagacaacgcacatcaactaacttcagttcaagtttttaaacagatctattaat--aagtacttatgttgctgcagCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
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gtttgctcagctgataatagtcataatagaccttgcaggtc--tttattattgatcgtttacttgtggcttattgttaattcgaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGATTTCTGGAAAGAATATGGGGAATCTATTGGTTTTCGTTACGTAGCTA
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA10G42600.1 (Glycine max), 3'ss of exon 7
ataagaggcatccacaaaagcagcctcagacaacgcacatcaactaacttcagttcaagtttttaaacagatctattaataagtacttatgttgctgcagCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
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gttggctaagcggacaatagttataatacaccttgcagatctttattattgatttttaacttgtggcttattgttaattcaaaagattttattgttgcagCCAACTCCCTTGCACTTAACTGTCAAAGAGTATGTTACTCCTGAGAAGTTTGCTTTCTGGAAAGAATACGGGGAATCTATTGGTTTTTGTTATGTAGCTA
upper sequence: Vv10s0071g01020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G08415.1 (Arabidopsis thaliana), 3'ss of exon 5
--------ataaga--ggcatccacaaaagcagcctcagacaacgcacatc--aactaacttcagttcaagtttttaaacagatcta---ttaataagtacttatgttgctgca-------gCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
|| | ||| | | | | || | || | | || | || | ||| ||| || | ||||| || | || || | ||| | || |||||||||||| || || ||||| ||||||||||| || ||||||||||||| ||||||||| ||| || || ||||| ||||| ||||||||||| |
gtaaactaatcacttcaacattccccacatcattcgcaatattcctatttccaagatagaaagatcccaaatttcaaagaacatctacgatttaaaaccgtttctcttgttccacaatgaagCCAACTCCATTGCATCTGACTGTGAAAGAGTATGTCACACCTGAGAAGTTTGATTTCTGGAAAACATACGGAGAATCAATAGGATTTCGTTATGTTGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttcagttcaagtttttaaacagatctattaataagtacttatgttgctgcagCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
tttttaaacagatcta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataagaggcatccacaaaagcagcctcagacaacgcacatcaactaacttcagttcaagtttttaaacagatctattaataagtacttatgttgctgcagCCAACTCCATTACACCTTACTGTCAAAGAGTATGTTACCCCTGAGAAGTTTGCTTTCTGGAAGGAATATGGGGAGTCAATTGGATTCCGTTATGTTGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
ataagag
- - - - - -ccacaaa
- - - - - - - - - - -agcctca
- - - - - - - - - - - - - - - caacgca
- - - - - - - - - - - - - - - - - - -catcaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaga