Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g55560.2 (Oryza sativa), 3'ss of exon 4
gtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
| | || | | | | || | | | || | | | || ||| || | || | |||| || || ||||| ||||||| || | || |||||||||||||||||||| ||||||||||||||||||||||| | ||||||||||||| || |||||||| || | |
---------------gtaagttctcatgtgccaaattgaggtg-atattatgcgctagttat--taatgtatccaatgatcatctggata------ctttgcagATTGAAGATCGATTCTACATATACCTGGAATATGTTCACCCTGGTTCAATTAATAAATATGTTAATCAACATTGTGGAGCAATGACAGAATCAGTAATCC
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g02780.1 (Oryza sativa), 3'ss of exon 4
gtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
| | | ||| | | | | | | | | | | ||| | | |||| | ||||| ||||||| || | || || ||||||||||||||||| || |||||||||||||| |||||| |||||| |||||| || || ||||| ||||| |
----------------------------gtaagtccctgtggaaatctgatcaagtatgtccattgtcatgatttattctgaagttgtttttggatc-gtgcagTTTGAAGATCGCTTCTACATTTACCTGGAATATGTTCACCCAGGTTCAATTAATAAGTATGTCAAACAACATTATGGAGCAATGACGGAATCAGTTGTCC
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G034877_T01 (Zea mays), 3'ss of exon 5
gtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
|| ||| ||| | || ||| | | ||| |||| | | | || || | ||| | || |||| | | | | ||||| | ||||| | | || ||||||||||| |||||||||||||||||||| |||| ||||| | | ||||||||||| | | |||||||| || |
gtaagttctcctttgccacgttaag-----tacctctaatatttatgt-gccagtttcc---agtgatttg------taatgttcttttactcaactcttgcagATCGAAGATAGATTCTACATATACCTGGAGTATGTTCATCCTGGTTCAATCCATAAGTATGTTCATCAACATTGTGGATCATTGACAGAATCAGTCATCT
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G156800_T02 (Zea mays), 3'ss of exon 4
gtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
| | || | | | | | | | | | |||||| | ||| || || | |||| | | ||||| | ||||| | | || ||||||||||| |||||||||||||||||||| |||| ||||| | | |||| |||||| | | |||||| | || | |
---------------gtaagttctcctttgtcacttaagtagccttagtacttactttccagtgctttgtaa-tggttgtttattcaaatct-------tgcagATCGAAGATAGATTCTACATATACCTGGAGTATGTTCATCCTGGTTCAATCCATAAGTATGTTCATCAACACTGTGGATCGCTGACAGAAGCAGTCATCC
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G10050.1 (Glycine max), 3'ss of exon 3
gtgagtgatc--cagttgcagattatggtattcatgcttaacatttgtc-ttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
|| || ||| | | |||| | | | ||| | |||| | | | || | | || || ||| | ||| |||| ||||| | |||||||||| |||||| ||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||| || || |||||||||||| |||
gtaagcaatctcctacttcagaattagctgctcaagattaataatcattattctgtaacagccttaaaaacctt-----ctaacatctttgggttatgtgtttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGTGCCATAACAGAATCTGTTATTC
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G20460.1 (Glycine max), 3'ss of exon 5
gtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
|| || ||| | | | || | | |||| || ||| | | | ||| || | | | ||| | || || | ||| |||||||||| |||||| ||||||| || |||||||||||||||||||||||||||||||||||||||||||| |||||||| || || ||||||||||| |||
gtaagcaatc---tcctacttcataattagc-tgctcaagattaata--atcattattctgtaacagcct-------taaaaccttaacat-atgtgcttgcagGTTGAGGACCGGTTTTATATTTATCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGATCATTGTGGTGCCATAACAGAATCTGTCATTC
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G06200.1 (Glycine max), 3'ss of exon 7
gtgagtgatccagttgcagattatggtattca--tgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcct-atgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
|| || | | || | | ||||| | | ||| ||| ||| || | | | |||| ||||| || | |||||||| || || | | |||| |||||| || ||||||| || |||||||||| ||||| |||||||| ||||||||||| |||||||||||||| || || ||||||| ||||||||
gtaaggaag--aattcctattcatggtgattagttgcctaaaattattcat------tatttatag-aactt--cttactaatatctttgggttgtgttttaactagGTAGAAGACAGGTTTTATATTTATTTGGAATATGTCCATCCCGGTTCAATGAATAAATATGTTCGTGAACATTGTGGTGCAATAACAGAATGTGTTGTTC
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G39070.1 (Glycine max), 3'ss of exon 6
----gtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgc-agGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
| || ||| || ||||| | | | | | ||||| || ||| |||| | | | || ||||| |||||||| || || | | |||| |||||| || ||||||| || |||||||||| ||||| |||||||| |||||||| || |||||||||||||| || || ||||||| ||||||||
gtaaggaagaattcctattcatgatta-gttgtctaagattaaccattatcta--tagaactgccca-caaattaaccttctaatatctttgggttgtgttttgactagGTAGAAGACAGGTTTTATATTTATTTGGAATATGTCCATCCCGGTTCAATGAATAAATACGTTCGTGAACATTGTGGTGCAATAACAGAATGTGTTGTTC
upper sequence: Vv00s1194g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G66850.1 (Arabidopsis thaliana), 3'ss of exon 4
----gtgagtgatccagttgcagattatg-gtattcatgcttaacatttgtcttgttagatttccatagt---aacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
|| | ||| || | || | || | ||| || || | || | | | || || | ||| ||| ||| ||| | | ||||| ||||| || | | ||||||||||||||||||||| || |||||||| || |||||| ||||||| ||||| || | || ||||||||||||||||
gtgagtaatcaatctgtttatatatcctctgtttacatatatataatctacctacccaaggcagtgtggctgaaaattcattgagcaattctctgatt--gtgcatgtacagGTAGAAGATCGTTTCTTTATATACCTGGAATATGTTCACCCGGGTTCAATAAACAAATATATCCGTGATCATTGCGGCACCATGACAGAATCTGTTGTTCMapped 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|161712085|gb|FC061457.1|FC061457EST: TTAGCCAACTAAAGCATCCAAACATTGTGCAGTATTTTGGTAGTGAAACA GTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATT
genomic: TTAGCCAACTAAAGCATCCAAACATTGTGCAGTATTTTGGTAGTGAAACAgtgagtgatc ... gcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATT
EST:
gi|110689010|gb|EE067915.1|EE067915EST: TTAGCCAACTAAAGCATCCAAACATTGTGCAGTATTTTGGTAGTGAAACA GTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATT
genomic: TTAGCCAACTAAAGCATCCAAACATTGTGCAGTATTTTGGTAGTGAAACAgtgagtgatc ... gcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
tgattaatatctcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgatccagttgcagattatggtattcatgcttaacatttgtcttgttagatttccatagtaacttaactgattaatatctcaattttatgcctatgcagGTTGAAGACCGGCTTTATATATACCTGGAATATGTTCATCCTGGTTCAATTAATAAATATGTCCGTGAACATTGTGGAGCTATTACAGAATCTGTTGTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT