Sequence
atgc intronic sequence ATGC exonic sequence...tgggaagatgaagatctcattatacaagacttgctttgattgtgagtgaaagtacttagtagtttttttgtgcactgatttttgtaatttggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTAGCTCAATTCAAATCCGAA
Basic information
species | Glycine max |
transcript | GLYMA17G34730.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G34730.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os02g12810.3 (Oryza sativa), 3'ss of exon 4
tgggaagatgaa--gatctcattatacaagacttgctttgattgtgagtgaaagtacttagt-agtttttttgtgcactgattt-ttgtaatttggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTAGCTCAATTCAAATCCGAA
||| || | | | | ||| | || | ||| | | || | | || || ||||| || | | |||| |||| | || ||||||||||| || ||||| ||||| ||||| ||||| || |||| |||||||| ||||||||||| |||
----aagctggaagaaacaaaacatatatgattcattttcacctaaattgccattgttttgtgagtttcttgctctggtaatttattgtcctcatctattgcagGAAGTTGCAGTGAAGAAATTTCTTGACCAGGATTTATCGGGTGTTGCACTAGATCAATTCAAATGTGAA
upper sequence: GLYMA17G34730.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G11850.1 (Arabidopsis thaliana), 3'ss of exon 6
------------------------------------tgggaagatgaa-gatct-cattatacaagacttgctttgat-----tgtgagtgaaagtacttagtagtttttttgtgcact-----gatttttgtaatttggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTAGCTCAATTCAAATCCGAA
|| | | | |||| || | | || | | || | | | |||| | || || ||| | || | | || | | ||| | | |||||||| ||||| |||||||||||||||||||||||||||||||||||| | | || |||||||| |||
gtgagttatgttttgtagtcttaatctacttatccttgcaatgttttttaatctgcagtttctaaaaatcactctcacattcccttcgatgaagagatttgctattttagtcatggagttcttggactgattgtgtttttcctttcagGAAGTGGCTGTTAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCATTGACACAGTTCAAATCTGAA
upper sequence: GLYMA17G34730.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv04s0008g01310.t01 (Vitis vinifera), 3'ss of exon 6
-tgggaagatgaagatctcattatacaagacttgct--ttgattgtgagtgaaagtacttagtagttttttt--gtgcactgatttttgtaatttggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTAGCTCAATTCAAATCCGAA
| ||| | || | || ||| | || || | ||| | ||| | |||| ||| ||| | | ||| ||| || ||| |||||| |||||||| |||||||| || | |||||||||||||||||||||| | | ||| || | || |||
gagatgtgatagaaattctggatcatgagtgttgatgatttatcccatttaaaactgtttattggtttgttttagtgtgataaattt-gtattt---cat-acagGAGGTTGCTGTGAAGAAGTTCCTAGCCCAAGATTTCTCTGGTGATGCATTGGTTCAGTTTAGATACGAGMapped 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|192329480|gb|FK022200.1|FK022200EST: GTTCTTATGGTGAAGTTTATCGTGCCGATTGTAATGGCACT GAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTA
genomic: GTTCTTATGGTGAAGTTTATCGTGCCGATTGTAATGGCACTgtaagtctac ... ggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgaaagtacttagtagtttttttgtgcactgatttttgtaatttggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTAGCTCAATTCAAATCCGAA
cactgat putative branch site (score: 3)
tgatttttgtaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgggaagatgaagatctcattatacaagacttgctttgattgtgagtgaaagtacttagtagtttttttgtgcactgatttttgtaatttggcatgacagGAAGTTGCTGTAAAGAAGTTTCTGGACCAAGATTTCTCTGGTGATGCACTAGCTCAATTCAAATCCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - -cttgctt
- - - - - - - - - - - - - - - - - - - - - tgagtga