Sequence
atgc intronic sequence ATGC exonic sequence...gatcacaatgctgatttttgtaaaagaaaattttattgggaaaattttccatcattcccttactcttttaactgttgaactgttaattgtttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os05g50750.3 (Oryza sativa), 3'ss of exon 10
------------------------gatcacaatgctgat--ttttgtaaaagaaaattttattgggaaaattttccatcattcccttactcttt-taactgttg---------aactgttaat------tgtttccctc------cagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG---
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gtaagtttagtattcagtatttcagttccttgtgccctttgttctacgaattcatagcttgctaccaagactgtaaagctactatttgttctttgtgaccattgcaaagtctaaagttttaaccctgtctgttcttcttactgaacagGAAATTCCA---GATAACGAGTTTGAGAAGCGCATCAGGCCAGAGGTTATACCAGCCAGTGAGATAGGAGTGACTTTTGATGACATTGGAGCCCTGGCTGACA
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os01g43480.2 (Oryza sativa), 3'ss of exon 9
gatcacaatgc-tgatttttgtaaaagaaaattttattgggaaaattttccatcattcccttactcttttaactgttgaactgttaattgtttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG---
||| | | ||| | | || || || | |||||||| | || |||| ||||| || || || || || | | |||| |||||| |||||||| | ||| ||| || | ||| |||||| ||||| ||||| |||||||||||||||||||| || || || || ||
----gtaatacattgtttcaactacaataagttataattaagtaattttcc-tagtttaattacatgtttaaaattt----tgcta-ttcttaacttacagGTCGTTCCA---GACAATGAGTATGAAAAGAAGATCCGACCAACGGTTATACCAGCCAATGAAATAGGAGTGACATTTGATGACATTGGAGCACTGGCTGATA
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G128748_T01 (Zea mays), 3'ss of exon 11
gatcacaatgctgatttttgtaaaagaaaattttattgggaaaattttccatcattcccttactcttttaactgttgaactgttaattgtttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG---
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-------------------------gtaagtcgtcatcagttgactctgccccctgtgttcttttcctcaacgttaacagcatttgt-gtttttgagcagGAAGTTCCA---GACAATGAGTTTGAAAAGCGTATCAGACCAGAGGTCATTCCGGCAAGTGAGATAGGAGTGACATTCGATGACATCGGAGCCCTGGCAGATA
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G159307_T01 (Zea mays), 3'ss of exon 10
-gatcacaatgctgatttttgtaaaagaaaattttattgggaaaattttccatcattcccttactcttttaactgttgaactgttaattgtttccct-ccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG
| | || ||| || ||| | | | || | || || | || | | ||| | | ||| | |||| || |||||| || | || ||||| ||||| |||||||| || ||||| || || || || |||||||| ||||| ||||||||||||| ||||| ||| ||
gtaccgttattctggttgc-ataattcactgtgtaccctagatgaatta--atttaccagttgacaatctgtaaattgtaattttattcttttctctattagGAAGGGACAGCAGATAATGAGTTTGAAAAGCGTATTAGACCAGAAGTGATACCTGCAAATGAGATTGGAGTTTCATTTGATGATATTGGTGCCTTGGATG
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G29040.1 (Glycine max), 3'ss of exon 10
---gatcacaatgctgatttttgtaaaagaaaattttattgggaaaattttccatcattcccttactcttttaactgttgaactgttaattgtttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG---
|| ||||| | | ||||| || |||| | | | | | || |||| | | | ||||| || | | ||||||||||| |||||| || ||||||||||| ||||| |||||||||||||| || ||||||||||| || ||||||| ||||| ||||| ||| ||
actagccatgcagctgaagctgtatgatttaaattcta---aacttatttccttttactttcccccttttttgtgttactatatactaatttcttgcttgcagGAAGTTCC---TGACAACGAGTTTGAGAAGCGCATAAGACCAGAGGTTATCCCTGCAAATGAGATAGGGGTTACATTTGCAGATATTGGTGCATTGGATGAGA
upper sequence: Vv16s0050g01850.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G23250.1 (Glycine max), 3'ss of exon 10
--gatcacaatgctgat-ttttgtaaaagaaaatttta-ttgggaaaattttccatcattcccttactcttttaactgttgaactgttaattgtttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG---
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ctagccatgtaactgaagctgtgtgatataaattctaaacttatttccttttactttgcccccttttttgtgttactata----tactaattgcttgcttgcagGAAGTTCC---TGACAACGAGTTTGAGAAGCGCATAAGACCAGAGGTTATCCCTGCAAATGAGATAGGGGTTACATTTGCAGATATTGGTGCGTTGGATGAGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|110413944|gb|EC979763.1|EC979763EST: CTGCACTAGCAAAGAAGGATGGTGAGAATCAACCTGCAACAAAAGCTGCA GAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATC
genomic: CTGCACTAGCAAAGAAGGATGGTGAGAATCAACCTGCAACAAAAGCTGCAgtaagtcctt ... ttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATC
EST:
gi|161716574|gb|FC066235.1|FC066235EST: CTGCACTAGCAAAGAAGGATGGTGAGAATCAACCTGCAACAAAAGCTGCA GAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATC
genomic: CTGCACTAGCAAAGAAGGATGGTGAGAATCAACCTGCAACAAAAGCTGCAgtaagtcctt ... ttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttccatcattcccttactcttttaactgttgaactgttaattgtttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG
ttgtttccctcc CT-rich tract
ttaattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatcacaatgctgatttttgtaaaagaaaattttattgggaaaattttccatcattcccttactcttttaactgttgaactgttaattgtttccctccagGAAGTTCCACCTGACAATGAATTTGAGAAGCGTATAAGGCCAGAGGTTATCCCAGCGAATGAGATAGGAGTGACATTTGATGATATCGGTGCTTTGAGTG
- - -caatgct
- - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - -gggaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgttga