Sequence
atgc intronic sequence ATGC exonic sequence...cgcttctccttttggaatccaattgtttgtatgtataattctttgttgtctcttctccattttgaattgtggtattttggaattgttgctctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTTTATCGTCCTGAGGAGGCTGAGAAAAAAGGAGGTGGAAGCTGGAAATCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g03510.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g34330.1 (Oryza sativa), 3'ss of exon 2
----cgcttctccttttggaatccaattgtttgtatgtataattctttgttgtctcttctccattttgaattgtggtattttggaatt---gttgctctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTTTATCGTCCTGAGGAGGCTGAGAAAAAAGGAGGTGGAAGCTGGAAATCAA---
|| |||| || |||| | | |||| |||| |||||| |||| ||| || || | | | || | ||| | |||||| || || | ||| ||||||||| | |||||||| |||||||||||| | || || |||||||| ||||| || || |||||||||||| |||
tgaggaggcaaagttacacaatc---ttagttgtttctgtaatc---tgttctctctt-tccagagtgagttatgagaaataacacttcactataatcttggaacagGATATAACAGAAACT---GAGGGAAGCTTATCAGTAACTGGTCAGTGGTTTTATAGACCAGAAGAGGCTGACAAAAAGGGTGGGGGAAGCTGGAAAGCAAGTG
upper sequence: Vv02s0025g03510.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G37830.1 (Glycine max), 3'ss of exon 2
---cgcttctccttttggaatccaattgtttgtatgtataattctttgttgtctcttctccattttgaattgtggtattttggaattgttgctctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTTTATCGTCCTGAGGAGGCTGAGAAAAAAGGAGGTGGAAGCTGGAAATCAA
| | || || || | | ||| | | ||| || | | | | | | | ||||||| |||| | || |||||||||||||| | | || ||||| ||||| |||||||||||||||||||||||||| || ||||| | |||||| ||||| |||||| |||||
tgtgggtgaggctgctgttattcgttccttt-tccacaaaatctagatttatagacctttctctctccaccttctgattttgggg--gttgttttgccatcagGACATTACTCAATCCCTGAATGGCAGCATGATGGTCACTGGACAGTGGTTTTATCGTCCTGAAGAAGCTGAAAGAAAAGGTGGTGGCAGCTGGCAATCAT
upper sequence: Vv02s0025g03510.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G01770.1 (Glycine max), 3'ss of exon 2
-----cgcttctccttttggaatccaattgtttgtatgtataattctttgttgtctcttctccattttgaattgtggtattttggaattgttgctctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTTTATCGTCCTGAGGAGGCTGAGAAAAAAGGAGGTGGAAGCTGGAAATCAA
| | | || || || | ||| | | | ||| | || | | | | | | |||| || |||| | || || ||||||||||| || | | | || ||||| ||||| || |||||||||||||||||||| || || ||||| | |||||| ||||| |||||| |||||
tgtgtgggtgagggtgctgttattcattaattt-tctacaaaatctagatatatcgacctttctctctccacctt--catttggggg--gttgttttgttgccagGACATTACGCAATCCCTAAATGGCAGCATGATGGTCACAGGACAGTGGTTTTATCGTCCCGAAGAAGCTGAAAGAAAAGGTGGTGGCAGCTGGCAATCAC
upper sequence: Vv02s0025g03510.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G42920.2 (Glycine max), 3'ss of exon 2
---------------------------cgcttctccttttggaatccaattgtttgtatgtataattctttgttgtctcttctccattttgaattgtggtattttggaattgt------tgctctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTTTATCGTCCTGAGGAGGCTGAGAAAAAAGGAGGTGGAAGCTGGAAATCAA
||| || || ||| | || || | | || || | | ||| || || | ||||| | || || | | ||| | ||||||||||| ||| ||| || | | | | || || || ||||||||||||||||| || || || ||||||||||| ||||||| |||| ||||
gtactcttatctatttcccttctcaattgctattcattgtggttttagatatttaatcaattcgcttgattcattccccttatcaatacttgtttgtgctgcattcatgttatgaagggttttctcctttcagGACATTACGCAGTCTATCAGTGGCAACGTGAAAGTGACGGGGCAGTGGTTTTATCGTCCCGAAGAAGCCGAGAAAAAAGGTGGTGGAAACTGGCAATCGTMapped 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|352778218|gb|FQ465528.1|FQ465528EST: TTTTAGTTCCTGAGGATGAAAAGCAAAAGCCTTATGTGGCAATTATTAAG GACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTT
genomic: TTTTAGTTCCTGAGGATGAAAAGCAAAAGCCTTATGTGGCAATTATTAAGgtgattgatt ... ctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtctcttctccattttgaattgtggtattttggaattgttgctctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTTTATCGTCCTGAGGAGGCTGAGAAAAAAGGAGGTGGAAGCTGGAAATCAA
ttgctct CT-rich tract
attttgaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgcttctccttttggaatccaattgtttgtatgtataattctttgttgtctcttctccattttgaattgtggtattttggaattgttgctctggtgacagGACATTACTCAGACTAGAGAGGGAAGCATTATGGTAACTGGACAGTGGTTTTATCGTCCTGAGGAGGCTGAGAAAAAAGGAGGTGGAAGCTGGAAATCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- cttctcc
- - - - - - - -aatccaa
- - - - - - - - - - - - - -tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgtggt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgct