Sequence
atgc intronic sequence ATGC exonic sequencegttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os05g38400.2 (Oryza sativa), 3'ss of exon 5
gttagctaactgt-ttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctc-acctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
||||| | | | | ||||| ||| | |||| | | | | || ||||| | | | ||| | ||| | | || || | || |||||| ||| || | | || | | || ||| ||| || | | ||| | | | |||| | || ||||| ||||| || ||||| ||||| ||||||||||| ||||||||||| ||||| ||||| || ||||| |||||||| || || ||||||||||| ||||
gttagttcattctcttcttctgttc----tactttgaaacgactgtcaaatatgaaatatataca---tgcacattgattctcaagctctgctagttccacctatt----caataatgcagtagctactgcttaaacgttgttaa-gttacaataaaaactgtataatgacaagcttttctgt-tggtccagGTGTTTTTTAAGGATGTAGCTGGTTGTGATGAAGCTAAGCAAGAAATAATGGAGTTTGTGCATTTCCTTAAGAATCCCAAGAAGTATGAAGAGTTAGGAG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g62500.1 (Oryza sativa), 3'ss of exon 5
gttagctaactgtttcttttgtcaaaggtggtttgtcttta--gtttgcagcatccaatattttta-cagtatacaataattattatatcctccttgctcacctatggt-tataatcattcgattttctctctctgactattattat-tattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
| | |||| | ||| ||| || | |||||| | || | | | | | || | | | | | | || | |||| || | || || | |||| || ||| | | | | || ||| | ||||||| || || || ||||| ||||| ||||||||||| || |||||||| |||||||||||||| ||||| || ||||| || ||||||||||| ||||||
--------------------------gttagtttttatttgctatttccatctcttgctattttgaacaaaacatgaaattcatatccttttttgtaaatgtttgttctgtagctttattcaccattgacaaagaacatacaataacatattcatataattctactgaagtaaccttgtttcttgtgtgctacagGTGTTCTTTAAGGATGTAGCTGGCTGTGATGAAGCCAAACAAGAAATTATGGAATTTGTTCATTTCCTGAAAAATCCCAAGAAATATGAAGAACTGGGAG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G14640.1 (Glycine max), 3'ss of exon 2
gttagctaa---ctgtttcttttgtcaa--aggtggtttgtctttagtttgcagcatccaata---tttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactatta-ttattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
||||| | || |||||| | |||| || ||| | | ||| | || | |||| | || | | | | |||| | | ||| | | | | | | | | |||| || | || | | | | |||| | | | | | || || | | || ||||||| ||| |||||||||||||| |||||||| || ||||||||||| ||||| ||||| |||||||||||||| || || ||||||||||| | || |
gttaggagatttctttttcttctatcaatgagatggctgctgttttttgtgtttgttttaatagcgtgttccccacttgctgttgttatctttccagttttggttatttcctcctggcaggagtgctgctaaataacttgacaataagttcatttaagagacaatatttatcttcttttttttgtttcattttgttcagGTCTATTTTAAAGATGTTGCTGGTTGTGATGAGGCGAAGCAAGAAATTATGGAGTTTGTCCACTTCCTCAAGAACCCAAAGAAATATGAAGAACTCGGTG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G06530.1 (Glycine max), 3'ss of exon 5
---gttagctaactgtttcttttgtcaa--aggtggtt--tgtctttagtttgcagcatc-caatatttttacagtatacaataattattatatcctccttgctca---cctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
| || | || |||||| | ||| || ||| | || || || | | | || || | | | | || |||| | | || | | ||| | | | | | | || | | | | ||| | || || | | || | | ||| | | || ||| ||| ||| |||||||||||||| |||||||| |||||||||||||| ||||| ||||| |||||||||||||| || || ||||||||||| | || |
gttgggagatttctttttcttctaccaatgagatggctgctgatgtttgtgtttgttttaatagcatgttccccatttgccattgttatctttccagttttagttatttcctccaggcaggagtgctggtaaataacttgacaataagt-tcatttaagagacaatatttatcttcttgttttgtttc--attttgttcagATCTATTTTAAAGATGTTGCTGGCTGTGATGAGGCAAAGCAAGAAATTATGGAGTTTGTCCACTTCCTCAAGAACCCAAAGAAATATGAAGAACTTGGTG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G06580.1 (Glycine max), 3'ss of exon 2
---gttagctaactgtttcttttgtcaa--aggtggtt--tgtctttagtttgcagcatc-caatatttttacagtatacaataattattatatcctccttgctca---cctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
| || | || |||||| | |||| || ||| | || || || | | | || || | | | | || |||| | | || | | ||| | | | | | | || | | | | ||| | || || | | || | | ||| | | || ||| ||| ||| |||||||||||||| |||||||| |||||||||||||| ||||| ||||| ||||||||||||| || || ||||||||||| | || |
gttgggagatttctttttcttctatcaatgagatggctgctgatgtttgtgtttgttttaatagcatgttccccatttgccattgttatctttccagttttagttatttcctccaggcaggagtgctggtaaataacttgacaataagt-tcatttaagagacaatatttatcttctttttttgtttc--attttgttcagATCTATTTTAAAGATGTTGCTGGCTGTGATGAGGCAAAGCAAGAAATTATGGAGTTTGTCCACTTCCTCAAGAGCCCAAAGAAATATGAAGAACTTGGTG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G29080.1 (Arabidopsis thaliana), 3'ss of exon 5
gttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
|||| | | | |||| || | | || | | || ||| || || ||| | |||| | | | ||| | | |||||| ||||||||||||||||| || || || |||||||| ||||| ||||| || ||||| ||||| || || || |||||||| ||||| |
--------------------------------------------------------------------------------------------------------gttagagacttagagttttgcctttgtttttaatgatccgtttggaatttataaacttacttttgttgtttt----cttcgc-cagATTTATTTCAAGGATGTTGCTGGATGTGACGAGGCTAAACAAGAAATTATGGAGTTTGTACATTTCCTTAAGAACCCAAAGAAGTATGAAGATTTGGGTG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G07510.1 (Arabidopsis thaliana), 3'ss of exon 5
gttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
|| | || ||| | ||| | | | || || | ||| | ||| | | ||| ||| | | ||||||||| | | ||| | | ||| ||||||||||| ||||| || || || || |||||||| ||||||||||| || ||||| |||| || || ||||||||||| |||||||
------------------------------------------------------------------------------------gtcagcatt--tcaatcagggtggaga--agttgaattaccatcttcatttccaattcatgatgctattgagatttactactgatctatttt--gttttttgccagATATATTTTAAAGATGTTGCGGGATGCGAGGAGGCTAAACAAGAAATTATGGAATTTGTGCATTTCCTTCAGAACCCAAAGAAATATGAAGATTTGGGAG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S346_22V6.1 (Physcomitrella patens), 3'ss of exon 6
gttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
| |||| | | || || | ||||| || |||| | | || | || || || || | | || ||| | | |||| ||| |||||| | ||||||||||||||||| ||||| || ||||| ||||| || ||||| || |||||||| | || || || || || ||| | || | || |
--------------------------------------------------------------------------aagttataagtgggaacatg-tcgcgtatggccatgtacatttggt------------acagtagttgcatttgtctttttgaaaagaggtgtattt-tatttgatcct--cacagGTAATGTTCAAAGATGTTGCTGGTTGTGACGAGGCAAAACAAGAGATTATGGAGTTCGTTCACTTTTTGAAAAACCCCAAGAAGTATCAGGAACTTGGTG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S39_149V6.1 (Physcomitrella patens), 3'ss of exon 5
gttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgac-tattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
||| | |||| | | | || | | || | | | | | | | ||||| | ||||||||||||||||| || || || ||||| ||||| ||||||||||||||||||||| | |||||||| || |||||| |||| | || |
---------------------------------------------------------------------------------------------------------------------------------gtgatgtcttatgactcccggaaa-atgacggagctttattttgtgcgttgtgttgctgcagGTGATGTTCAAAGATGTTGCTGGTTGCGACGAGGCAAAACAAGAGATCATGGAATTTGTTCACTTCTTGAAGAATCCCAAGAAATATCAAGAACTTGGGG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ31204 (Selaginella moellendorffii), 3'ss of exon 6
gttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
| | | ||| | | | || || | ||| | | | | || | | | |||||| |||||| ||||| ||||| ||||| ||||| ||| |||| | ||||||||||| |||||||| |||||||| || || || ||||| | || |
-----------------------------------------------------------------------------------------------------------------------------gtatgtagctacagct----tctttgtttctagcggttgatcaattgtgcctgaaatt--tgcagGTCACTTTCAATGATGTCGCTGGTTGTGACGAAGCCAAGGAAGAGGTTATGGAATTTGTCCACTTCCTGAAGAATCCCAAGAAGTACGAAGAACTTGGCG
upper sequence: Vv06s0004g05030.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ17143 (Selaginella moellendorffii), 3'ss of exon 5
gttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
| | | ||| ||| | || || || | || | | | | || | | | |||||| |||||| ||||| ||||| ||||| ||||| ||| |||| | ||||||||||| |||||||| |||||||| || || || ||||| | || |
-----------------------------------------------------------------------------------------------------------------------------gtatgtagctacagttactttt----tttctagcggtttatcaattgtgcctgaaatt--tgcagGTCACTTTCAATGATGTCGCTGGTTGTGACGAAGCCAAGGAAGAGGTTATGGAATTTGTCCACTTCCTGAAGAATCCCAAGAAGTACGAAGAACTTGGCGMapped 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|161716526|gb|FC065223.1|FC065223EST: ACATAGGAAAAGCCCATATTATGAAAGTGGATAAGAATGCTAAGAATAAG GTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATG
genomic: ACATAGGAAAAGCCCATATTATGAAAGTGGATAAGAATGCTAAGAATAAGgttagctaac ... cctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATG
EST:
gi|33405227|gb|CF210854.1|CF210854EST: ACATAGGAAAAGCCCATATTATGAAAGTGGATAAGAATGCTAAGAATAAG GTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATG
genomic: ACATAGGAAAAGCCCATATTATGAAAGTGGATAAGAATGCTAAGAATAAGgttagctaac ... cctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
tattattatcattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagctaactgtttcttttgtcaaaggtggtttgtctttagtttgcagcatccaatatttttacagtatacaataattattatatcctccttgctcacctatggttataatcattcgattttctctctctgactattattattattatcattattattgtttgtttatctatttttggacctagtacagGTCTTTTTCAAAGATGTTGCTGGATGTGATGAAGCAAAGCAAGAAATCATGGAATTTGTTCACTTCCTCAAGAATCCTAAAAAATATGAAGAGTTGGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA