Sequence
atgc intronic sequence ATGC exonic sequenceCTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatgttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaatttactgcctagtgccatctgacacacaaatggaatttttttaaag
Basic information
species | Glycine max |
transcript | GLYMA06G43620.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G43620.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g11730.1 (Oryza sativa), 5'ss of exon 7
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatgttattgcttttcttttgttattaaaatggtgtaaa--tagtctcat-attaaataacaatttactgcctagtgccatc-tgacacacaaatggaatttttttaaag---
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CTACCGAGCACCGGAGCTCATATTTGGTGCAACTGAATATACTACATCAATAGATATATGGTCAGCTGGGTGTGTTCTTGCAGAGCTACTCCTTGGTCAGgttggtttcttt---tttctatggttgacagatctgcaaacttttggtttagttatttaagcatgatgtcatcactgttgctgtgattttgattatcttgtatttgtttttgctag
upper sequence: GLYMA06G43620.2 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os01g10840.1 (Oryza sativa), 5'ss of exon 7
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttat-gttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaatttactgcctagtgccatctgacacacaaatggaatttttttaaag
|| || || || || || || |||||||| || |||||||| ||||||||||| || ||||||||||| || || ||||| ||| | ||| | ||||||||| | ||| |||| | | | | || | | | || |||| || | | | || || | || | |||| ||| | |
TTATCGTGCTCCTGAGCTCATATTTGGTGCAACCGAGTATACAACTTCAATTGACATATGGTCAGCTGGATGCGTTCTTGCAGAGTTACTTCTTGGTCAGgttagtcactatatctttatctaaggaactgcaacatt-caggt--tccttgattagattatgctgtgatgt-tattctgattatatttcataatgtgtatttgtcag--
upper sequence: GLYMA06G43620.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G472625_T02 (Zea mays), 5'ss of exon 7
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatgttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaat--aacaatttactgcctagtgcca-tctgacacacaaatggaatttttttaaag-
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TTATCGTGCTCCAGAGCTCATATTTGGAGCGACGGAGTATACAACTTCAATAGACATATGGTCAGCTGGCTGTGTTCTAGCTGAGTTGCTTCTTGGTCAGgttggt-----tgcattcatataatgattaacctaatatttttgtacctcgatttgaccaaatcatgtatggtgtgattctaacctcttggggtcttggatcttatgtatcag
upper sequence: GLYMA06G43620.2 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G045330_T02 (Zea mays), 5'ss of exon 7
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatgttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaatttactgcctagtgccatctgacacacaaatggaatttttttaaag
||| || || || || || || |||||||| || |||||||| | |||||| || || ||||||||||| ||||| || |||||| ||||| | || |||||| | ||| || | | | ||| | | | ||| || | || | | | | | || ||| || | ||
CTATCGTGCCCCTGAGCTCATATTTGGTGCGACGGAGTATACAAGTTCAATAGACATATGGTCAGCTGGTTGTGTTCTAGCTGAGTTGCTTCTTGGACAGgttggt-----tgccttcatataatgattcacctaatataat--gtatgatgtgattctaacctcttggatcttgtgt-atgtatcag---------------------
upper sequence: GLYMA06G43620.2 (Glycine max), 5'ss of exon 6
lower sequence: AT4G18710.1 (Arabidopsis thaliana), 5'ss of exon 6
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatg-ttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaattt-actgcctagtgccatctgacacacaaatggaatttttttaaag
|||||| ||||| || || || ||||||||||||||||| || ||||| |||||||| ||||| ||||| ||||| ||||||||||| ||| | |||||||| | || || | | ||||| || | || | |||| || | | ||| | || ||| | ||
CTACCGTGCACCCGAGCTCATATTTGGTGCCACTGAGTACACAACTTCTATTGATATCTGGTCTGCTGGTTGTGTTCTTGCTGAGCTTCTTCTTGGTCAGgtaaacaattctttcagtaaccagcttattcaatctccatgtgtatatttgcattaggactcattgtgactatatcatgt--tcttatgcag-------------------
upper sequence: GLYMA06G43620.2 (Glycine max), 5'ss of exon 6
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 5'ss of exon 7
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatgttat---tgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaatttactgcctagtgccatctgacacacaaatggaatttttttaaag
|||||| ||||| ||||| || ||||| ||||| |||||||| || ||||||||||| ||||||||||| |||||||| |||||||| ||| | || ||||| | | | | || ||| | | | || |||| ||| | | | | || || || | | | || | | || ||| ||
CTACCGAGCACCTGAACTCATATTTGGGGCCACAGAGTATACAACCTCAATTGATATATGGTCAGCTGGTTGTGTCCTAGCTGAGCTTCTTCTAGGCCAGgtgaacaatttgcacagcaattttcagttttgcactttctgccaata-tctggaaatgtgttttagttctgtga-taaaactttgtt-catttgacttattttcggttacagMapped 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|213590966|gb|DB973749.1|DB973749EST: TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAG CCCTTATTACCTGGC
genomic: TTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatgtta ... ttttttaaagCCCTTATTACCTGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTACCGGGCACCAGAACTTATGTTTGGTGCCACTGAGTATACTACTTCAATTGATATTTGGTCAGCTGGCTGTGTCCTTGCTGAGCTGCTTTTGGGTCAGgtttatgttattgcttttcttttgttattaaaatggtgtaaatagtctcatattaaataacaatttactgcctagtgccatctgacacacaaatggaatttttttaaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT