Sequence
atgc intronic sequence ATGC exonic sequenceTTCTATTGCTGGAATGGTGTTGGATAGTGCCTTTTCGAACTTATATGATCTCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgtaatctctctctcactcactttttctctctgaatgctagcaccctttgtagtaaatgctcactctaaagaggaaaaaggcactctatatggttccttcc...
Basic information
species | Glycine max |
transcript | GLYMA07G40050.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40050.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os02g10440.1 (Oryza sativa), 5'ss of exon 6
TTCTATTGCTGGAATGGTGTTGGATAGTGCCTTTTCGAACTTATATGATCTCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgta---atctctctctcactcactttttctctctgaatgctagcaccctttgtagtaaatgctcactctaaagaggaaaaaggcactctatatggttccttcc
|| |||||||||||||| ||||||||||| || | |||||||||| | |||||||||||||||||||| || ||||| ||| ||||||||||||| ||| | | | | | || | | | || | | || | | ||| | | | || | || ||| | |||
CTCGATTGCTGGAATGGTATTGGATAGTGCTTTCACTAACTTATATGGCTTGATGATGGAGCTTGTGGATGTCTACAAAATCCGGGTTCCTAAATTCACGgtatgcacatattctgtataaagttgcttttgttccataacaaaatgacatggaatgc-tgca-atattgcattggcataatttgtagggtatcatggctta-
upper sequence: GLYMA07G40050.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os06g40730.1 (Oryza sativa), 5'ss of exon 6
TTCTATTGCTGGAATGGTGTTGGATAGTGCCTTTTCGAACTTATATGATCTCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgta-atctctctctcactcactttt-tctctctgaatgctagcaccctttgtagtaaatgctcactctaaagaggaaaaaggcactctatatggttccttcc
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CTCAATTGCCGGTCTGGTTTTGGACAGTGCTTTCTCTAACCTATATGACTTAATGATGGAGCTTGTAGATGTTTACAAAATCCGAGTTCCTAAGTTCACGgtatgcttgtcatttttgcagaatagtcttgttcactgttactatgaactgaataaaggaaccattcgctttctggagtttgtatgatata-ggcacatgc-
upper sequence: GLYMA07G40050.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G092895_T01 (Zea mays), 5'ss of exon 6
TTCTATTGCTGGAATGGTGTTGGATAGTGCCTTTTCGAACTTATATGATCTCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgta-atctctctctcactcactttttctctctgaatgctagcaccctttgtagtaaatgctcactctaaagaggaaaaaggcactctatatggttccttcc----
|| |||||||| ||||| |||||||||| || | ||||||||||| | |||||||||||||| || ||||| ||||| || ||||||| ||||| ||| | ||| | | | ||| || | | || || || ||||| | | | || | ||| | |
CTCAATTGCTGGCATGGTTCTGGATAGTGCTTTCGCTAACTTATATGACTTAATGATGGAGCTTGTAGAAGTTTACAAAATACGAGTTCCTAAGTTCACGgtatgattatcttgtggtgaatgtttagcttc-actactttca----ttaaagtaaccattttactgttgaactgtatgtgcgttttatgatctaattattaggc
upper sequence: GLYMA07G40050.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G081642_T04 (Zea mays), 5'ss of exon 6
TTCTATTGCTGGAATGGTGTTGGATAGTGCCTTTTCGAACTTATATGATCTCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgta--atctctctctcactcactt---tttctctctgaatgctagcaccctttgtagtaaatgctcactctaaagaggaaaaaggcactctatatggttccttcc-
|||||||| ||| ||| | |||||||||||||| | ||| | ||||| | |||||||| ||||| || ||||| |||||||| ||||||||||||| ||| | | || | | || || | || | | || | | |||| | | ||||| | | | ||| | |||| |||
TTCTATTGGTGGCATGATATTGGATAGTGCCTTCACTAACCTGTATGACTTGATGATGGAACTTGTTGACGTTTACAAAATTCGAGTTCCTAAATTCACGgtatgaccagcacatcttctgcatgcattactttttgtgttgaaatgtatattatgg-gaatggtga----aaagatgcatt-gccacaacaaatgggaacttatg
upper sequence: GLYMA07G40050.1 (Glycine max), 5'ss of exon 7
lower sequence: AT4G17150.2 (Arabidopsis thaliana), 5'ss of exon 6
TTCTATTGCTGGAATGGTGTTGGATAGTGCCTTTTCGAACTTATATGATCTCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgtaatctctctctcactcactttttctctctgaatgctagcaccctttgtagtaaatgctcactctaaagaggaaaaaggcactctatatggttccttcc----------
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TTCAATTGCTGGAATGGTCCTAGACAGTGCATTTTCAAACTTATTTGATCTGATGATGGAACTAGTGGATGTCTACAAAATCCGACTTCCGAAATTCACAgta--tgttctcctgctctctttaac---ctcaa--ctggtattcgtcatagcaa-tatacacctgaaactggacactg--agtttatataacacgaagaatgaaattaaMapped 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|18734457|gb|BM528196.1|BM528196EST: TCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACT GTTAAAATGGCTGTACAGTACATGCGGAGGGTTATTGAGAAGAAGGCAAAG
genomic: TCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgtaatctctc ... cctcaattagGTTAAAATGGCTGTACAGTACATGCGGAGGGTTATTGAGAAGAAGGCAAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTATTGCTGGAATGGTGTTGGATAGTGCCTTTTCGAACTTATATGATCTCATGATGGAGCTTGTGGATGTTTATAAAATTCGGCTTCCTAAATTCACTgtaatctctctctcactcactttttctctctgaatgctagcaccctttgtagtaaatgctcactctaaagaggaaaaaggcactctatatggttccttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT