Sequence
atgc intronic sequence ATGC exonic sequenceAGAAAGATCAACATTTGTTTCATCTTTGCTGCCTCTTCTTGCAGAATACTCCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTAGCAATGTCAAGgtcagcttttatatgttccctttttgaaataagtaattttgctactcctgtattagcacttacatgtataccctacaaatatggcacctggatgtaattt...
Basic information
species | Glycine max |
transcript | GLYMA20G35770.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 10
lower sequence: LOC_Os05g01060.2 (Oryza sativa), 5'ss of exon 8
AGAAAGATCAACATTTGTTTCATCTTTGCTGCCTCTTCTTGCAGAATACTCCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTAGCAATGTCAAGgt------cagcttttatatgttccctttttgaaataagtaattttgctactcctgtattagcacttacatgtataccctacaaat--atggcacctggatgtaattt
|| ||||| || ||||| || ||||| |||||||| | ||||||| ||| |||||| |||||| |||||| |||||||||||||||||| | ||||| || || | |||| | ||| | | || | || ||| | | || |||| | | | | ||| | |||| || | || |
GGAGAGATCCACTTTTGTATCTTCTTTATTGCCTCTTTTGACAGAATATAACCTTCAGCCTTCTGTTCTTGATGCTCAATCAATTGTTAGCAATCTGAAGgtatgtgccatctctcttatgcacacttgataatatta-tatccttgtttgttcttgattaagccccaagttttcaccaaaaaaatctatattatcttcaa-------
upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G104377_T02 (Zea mays), 5'ss of exon 7
AGAAAGATCAACATTTGTTTCATCTTTGCTGCCTCTTCTTGCAGAATACTCCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTAGCAATGTCAAGg-----tcagcttttatatgttccctttttgaaataagtaattttgctactcctgtattagcacttacatgtataccctacaaatatggcacctggatgtaattt
||| ||||| ||||| || || ||||| |||||||||| ||||||| ||| ||||||||||||| |||||| || || |||||||||||| | |||| || ||| | || ||| | | |||| || | ||| | ||| | || | | | ||| || |||| | || |||
AGAGAGATCTACATTCGTATCTTCTTTATTGCCTCTTCTATCAGAATATAACCTTCAGCCTCCTGTTCTTGATGCTCAGTCTATTGTTAGCAATCTGAAGgtatgttctgctgtaattagttgcttgtttggcat---tgattaaatgcccccttttccagtaagtgagcttgcctgtggtgaattggggaccttgttgcaat--
upper sequence: GLYMA20G35770.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv07s0130g00420.t01 (Vitis vinifera), 5'ss of exon 8
AGAAAGATCAACATTTGTTTCATCTTTGCTGCCTCTTCTTGCAGAATACTCCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTAGCAATGTCAAGgtc----------agcttttatatgttcccttttt---gaaataagtaattttgctactc-ctgtattagcactta--catgtataccctacaaatatggcacctggatgtaattt
|||||||||||||||||| ||||||||||||||||||||||| || || || ||||| || || ||| ||||||| || || |||||||| ||| ||||||| | ||| | || | | |||| |||| || || | || || || || ||||| | ||| || || || | | |||
AGAAAGATCAACATTTGTATCATCTTTGCTGCCTCTTCTTGCGGAGTATTCTCTGCAACCACCAGTTGCTGATGCCCAGTCTATTGTTAGTAATCTCAAGgtttgtaggaactggttttgaaatagtttcattttcaggaaacaatcaaatctgttattctctatattaacttttaagcaagtctattattctc-tatatt---------------Mapped 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|8670390|gb|BE191497.1|BE191497EST: CCCTTTAGCCTCCTGTTCCTGATGCACAATCAATTGTTAGCAATGTCAAG GTTTTGTTTAAACATTTACAGGAAAAACTTCTTCTCACTGAG
genomic: CCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTAGCAATGTCAAGgtcagctttt ... tatttggcagGTTTTGTTTAAACATTTACAGGAAAAACTTCTTCTCACTGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAAGATCAACATTTGTTTCATCTTTGCTGCCTCTTCTTGCAGAATACTCCCTGCAGCCTCCTGTTCCTGATGCACAATCAATTGTTAGCAATGTCAAGgtcagcttttatatgttccctttttgaaataagtaattttgctactcctgtattagcacttacatgtataccctacaaatatggcacctggatgtaattt
- - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG