Sequence
atgc intronic sequence ATGC exonic sequence...ttttttccttcatggggcagtggattaattggcatcatctttctcactgttactaactagctgtttgtttttccaaccttctttgttttcccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g05800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G035421_T01 (Zea mays), 3'ss of exon 3
----------------ttttttccttcatg-gggcagtggattaattggcatcatctttctcactgttactaactagctgtttgtttttccaaccttctttgttttccctttta-cagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
|| | || | || ||| | | || ||| || | | | || | | | | | | || || | | || | || | | ||||| || || || |||||||||| |||||| |||||||| ||||| || || ||||| ||||| ||||||||||| ||| | |||||||| | || |
gtgtgcaatgtttcttattctctctccttgcatgcaactgttcttttcacattatttaaataag-gtcaattattgacacagtaaacttacacattatatctttcccactatcatcagTATTCCAAGATGATACAAAACCCGTCTTATGCTGAGCTTCAGAAGGCTGCGAATCAAGGTAGGAGATGCACTTGGGAAAAGTTATCAGCCATCAGGGCAA
upper sequence: Vv08s0007g05800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G16440.1 (Glycine max), 3'ss of exon 1
-----ttttttccttcatggggcagtggattaattggcatcatctttctcact-gttactaactagctgtttgtttttccaaccttctttgttttcccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
||| | || | || | || | || | || | | | |||| ||||| | ||| |||| | ||| || | ||| | ||||||| |||||| |||| |||||||||||| | ||||||||||||||||| |||||||| || || ||||| |||||||||||||| ||||| ||||| |
tagaaatttattatttttatatcatt----tattggggacgattcaattgaatagttattaacttg-tgtatgttgtcttt-ttttccctgatcctcctgctccagTACTTAAAAATCATACAGAACCCTTCTTATGTAGAGCTTCAAAAGGCAGCTAACCAAGGCAGAAGATGCACCTGGGAGAAGCTTTCGGCCATGAAAGCAA
upper sequence: Vv08s0007g05800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G34500.1 (Glycine max), 3'ss of exon 1
------------------------------------------------------------ttttttccttcatggggcagtggattaattggcatcatctttctcactg---------ttactaactagctgtttgtttttccaaccttctttgtttt--cccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
||| | ||||| | ||| ||| || | | || | | ||| || || | | | || | ||| | ||||||| |||||| |||| |||||||||||| | ||||||||||||||||| |||||||| || || ||||| |||||||||||||| ||||| ||||| |
gtatgtgcccaagaacaattaaatactacgttttatttgaagataaaagaaataactagtgtttattaaaaatgggtttaggaatttattatttatatatcatatattggggaagattcagttgaatagtgattaacttgtgtatgttatctttccctgatcctgctccagTACTTAAAAATCATACAGAACCCTTCTTATGTAGAGCTTCAAAAGGCAGCTAACCAAGGGAGAAGATGCACCTGGGAGAAGCTTTCGGCCATAAAAGCAA
upper sequence: Vv08s0007g05800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G28660.1 (Glycine max), 3'ss of exon 2
ttttttccttcatggggcagtggattaattggcatcatctttctcactgtt-actaactagctgtttgtttttccaaccttctttgttttcccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
| || || | | ||| | || || | | | | | ||| | | | | | | || | | | ||| || |||||| | |||||| |||| |||||||||||| |||||||||||||||||||||||||| || || || || |||||||| ||||||||||| ||||| |
-tcaggagtttatttgtgtatcatttactaaagatgattcagttaattaatgattaaattgtgcatattgtgactgttgttttacctgtgtcctgttccagTACACCAAAATTATACAGAACCCTTCTTATGGAGAGCTTCAAAAGGCAGCCAACCAAGGGAGAAGATGTACCTGGGAGAAACTTTCAGCCATAAAAGCAA
upper sequence: Vv08s0007g05800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G31410.1 (Glycine max), 3'ss of exon 2
ttttttccttcatggggcagtggattaattggcatcatctttctcact-gttactaactagctgtttgtttttccaaccttctttgttttcccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
| || || | ||| || | | | | || | ||||| | | | | | || | | | ||| || |||||| | |||||| |||| |||||||||||| ||||||||||||||| |||||||||| || || || || |||||||| ||||||||||| ||||| |
-tcaggaatttatttatgtatcatttacgaaagatgactcagttaattagtgattaacttgtgcatattgtgactgttgttttacctatgtcctgttccagTACACCAAAATTATACAGAACCCTTCTTATGGAGAGCTTCAAAAGGCAACCAACCAAGGGAGAAGATGTACCTGGGAGAAACTTTCAGCCATAAAAGCAA
upper sequence: Vv08s0007g05800.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G04040.1 (Arabidopsis thaliana), 3'ss of exon 3
ttttttccttcatggggcagtggattaattggcatcatctttctcactgttactaactagctgtttgtttttccaaccttctttgttttccctttta--cagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
|| || | || ||| | || | | | | | | ||| | | | | ||| | |||| ||||||| || ||| ||||||| || || || | |||||||| || || || ||||||||||| || ||||||||||||||||| |||||||| ||| | |
-----gtttttatccaaaacccgaaatcttgaattttctttgattggtatcagagattttagacttgcctgagattcttattgggttgtggattttgtgtagTACTCGAAGATTATACAAAATCCGACTCATGTCGAGCTTCAGAAAGCGGCTAACCAAGGAAGAAGATGCACTTGGGAGAAGCTCTCAGCCATAAAATCAAMapped 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|22008993|gb|BQ794027.1|BQ794027EST: AAGATTGGGAGGGAGATGTCACTGTCGTTATGCCTGCCACACTTGCTCAG TACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCC
genomic: AAGATTGGGAGGGAGATGTCACTGTTGTTATGCCTGCCACACTTGCTCAGgtgtgtaaca ... ccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCC
EST:
gi|161716151|gb|FC064623.1|FC064623EST: AAGATTGGGAGGGAGATGTCACTGTCGTTATGCCTGCCACACTTGCTCAG TACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCC
genomic: AAGATTGGGAGGGAGATGTCACTGTTGTTATGCCTGCCACACTTGCTCAGgtgtgtaaca ... ccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgttactaactagctgtttgtttttccaaccttctttgttttcccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
tactaac putative branch site (score: 0)
ctgtttgtttttccaa putative PPT
tttgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttttccttcatggggcagtggattaattggcatcatctttctcactgttactaactagctgtttgtttttccaaccttctttgttttcccttttacagTACTCAAAAATTTTACAAAACCCTTCTTATTTGGAGCTTCAAAAGGCAGCCAACCAAGGAAGGAGGTGCACTTGGGAGAAGCTTTCAGCCATTAAAGCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - ttcatgg
- - - - - - - - - - - - - - - - catcatc
- - - - - - - - - - - - - - - - - - - - - ctcactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ctagctg