Sequence
atgc intronic sequence ATGC exonic sequence...gttcttctccccatattcagagttctctctccacccgctgaatttttattagtatacttctttaacaatttgtacttcttgatattttgtgacgtgaaagGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCGAGTGCTGAGGGTGCAATTAGGGGGGAAGGATGAGAGAGTGATTGCCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g14230.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g09890.1 (Oryza sativa), 3'ss of exon 1
gttcttctccccatat---tcagagttctctctccacccgctgaatttttattagtatacttctttaac--aatttgtacttcttgatattttgtgacgtgaaagGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCGAGTGCTGAGGGTGCAATTAGGGGGGAAGGATGAGAGAGTGATTGCCACT
|| || | ||| | | | || | ||| || ||| | || || | | | ||||| ||| |||| ||| | ||||||||| | ||| ||||||||||| |||| ||||| ||||| ||||| ||||||||||||| ||||| || || || ||| || | | || | ||
attgatcagctagtatatctttgcaacttgagctcaggaaattaatcttggttaat-tatttatctggttaattttgtgtttcatgat----tgttgtgctgaagGAATGAAACAGGACTGTTTTATGCTCTGGACCTTGGAGGCACCAACTTTAGAGTGCTGAGGGTACAATTGGGAGGAAAAGATAAGCGCATTATAGATACC
upper sequence: Vv18s0001g14230.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G37720.1 (Glycine max), 3'ss of exon 1
gttcttctccccatattcagagttctctctccacccgctgaatttttattagtatacttctttaacaatttgtacttcttgatattttgtgacgtga--aagGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCGAGTGCTGAGGGTGCAATTAGGGGGGAAGGATGAGAGAGTGATTGCCACT-
|| ||| | | | || | | | ||| || ||| | | | | | ||| | || ||| | | |||| ||| |||||||||||||| ||||||||||| |||||||| || || || |||||||| |||||||||||||| || || || || |||||| | || ||||||||
-----------tatgttctgt-tcccttcccagctttccttattattgtta-tgttccacaatgttaatgatttattattgttgtgacatgacatgactcaggAATGAGAAAGGGTTGTTTTATGCCTTGGATCTCGGAGGAACCAACTTCCGTGTGCTGAGGGTGCAGTTGGGTGGCAAAGATGAGCGTGTCATTGCCACCG
upper sequence: Vv18s0001g14230.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G40440.1 (Glycine max), 3'ss of exon 1
gttcttctccccatattcagagttctctctccacccgctgaatttttattagtatacttctttaacaatttgtacttcttgatattttgtgacgtgaa----agGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCGAGTGCTGAGGGTGCAATTAGGGGGGAAGGATGAGAGAGTGATTGCCACT
| || | | | | | || || || || |||||| | | | || | |||| | || | || | ||||||| || | ||||| |||||||| ||||||||||| |||||||| || || || |||||||| |||||||||||||| || || || || ||||| | || |||||||||
------gtatcctttcttatcttcccttcctaacttgccctgttgttatta-tgttcctcaatgttaattaatgatttattat-tgttgtgacatgcatgtcagGAACGAGAAAGGGTTGTTTTATGCCTTGGATCTCGGAGGAACCAACTTCCGTGTGCTGAGGGTGCAGTTGGGTGGCAAAGATGATCGTGTCATTGCCACT
upper sequence: Vv18s0001g14230.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S3_571V6.1 (Physcomitrella patens), 3'ss of exon 1
gttcttctccccatattcagagttctctctccacccgctgaatttttattagtatacttctttaacaatttg-tacttcttgatattttgtgacgtgaaagGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCGAGTGCTGAGGGTGCAATTAGGGGGGAAGGATGAGAGAGTGATTGCCACT-
| | | ||| | | || | | || | | | | | | || || | | ||| | ||||||||||||||| | | ||||||| ||||| | |||||||| |||||||| ||||| | ||||| || ||| ||| | ||||| ||| ||
-tacatactgatatactgaacaaataggttcagtgagtatgtatgttggtgacttttgtgtacgatgttctgatagcatcgggtcaattggggttgagcagGAATGAGAAAGGCCTTTATTATGCTGTGGATTTGGGTGGCACAAACTTCCGGGTGCTCCGTACCCAATTGGGTGGGCTGGAGGGTAGAGTAATTAA-ACAAMapped 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|122689260|gb|EC936164.1|EC936164EST: GGTAGTGATCTCAAGATGATTCTCAGCTATGTCGATACTTTCCCCACTGG GAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCG
genomic: GGTAGTGATCTCAAGATGATTCTCAGCTATGTCGATACTTTCCCCACTGGgtatgtcatg ... gacgtgaaagGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattagtatacttctttaacaatttgtacttcttgatattttgtgacgtgaaagGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCGAGTGCTGAGGGTGCAATTAGGGGGGAAGGATGAGAGAGTGATTGCCACT
ttctttaacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttctccccatattcagagttctctctccacccgctgaatttttattagtatacttctttaacaatttgtacttcttgatattttgtgacgtgaaagGAATGAGAAAGGCTTGTTTTATGCTTTGGATCTTGGTGGCACGAACTTCCGAGTGCTGAGGGTGCAATTAGGGGGGAAGGATGAGAGAGTGATTGCCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - ttctccc
- - - - - - - - - - - - ctctctc
- - - - - - - - - - - - - - - -cacccgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttcttg