Sequence
atgc intronic sequence ATGC exonic sequence...tttttgggatatggaagttgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaacctttctgatttctatgtgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA
Basic information
species | Glycine max |
transcript | GLYMA10G34430.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G10540.1 (Arabidopsis thaliana), 3'ss of exon 3
tttttgggatatggaagttgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaacctttctgatttctatgtg-cagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA
| ||| | ||| || || |||| | || | ||| | || || | | | || || ||| | | || ||||||||||||||||| ||| |||| || || ||||| || |||||| | ||||||||||| || ||||||||| ||||| | |||||||| |||||||
------------gtaagatattatttgagaatctaggagattgattcatattct------caaaatgtagttgcgttatggttttgttttgtgtttggcagAAAGGTCGTCTATCTGAGGATGAAGCTCGGTTCTACAGTGCAGAAGTTGTTGATGCTCTTGAGTATATACATAATATGGGACTGATACATCGAGATATTA
upper sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G04510.2 (Arabidopsis thaliana), 3'ss of exon 3
tttttgggatatggaagttgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaacctttctgatttctatgtgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA
|| | | | | | | | | | | | | | ||| |||| ||| || | || | | | ||| | ||||||||||||||| ||||| ||| |||| || || ||||| | || |||||| | ||||||||||| || ||||||| | ||||| | || ||||| |||||||
--------gtaagatgatcgctgaatcttgggagattgattcattcaatg-ttgtcggaatttgacat-----aacatcatggttcctttttttgtgcagAAAGGTCGGCTATCGGAGGATGAAGCTCGGTTCTACACTGCAGAAGTTGTGGATGCTCTTGAGTATATACATAGTATGGGACTGATTCATCGAGATATTA
upper sequence: GLYMA10G34430.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0074g00100.t01 (Vitis vinifera), 3'ss of exon 4
tttttgggatatggaagttgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagca-acctttctgatttctatg--tgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA
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--ttcttgatcttaaatttgtctctgcttcttgta-tgtggtgcatcatgcctacaactgcaagtttgctattgtaacatccagtgaatttgtgtgagtgcagAAAGGTCGTTTGTCAGAGAATGAAGCTCGCTTCTATGCAGCTGAAGTTGTAGATGCTCTTGAATATATTCATAGTCTAGGATTGATACACCGGGATATTAMapped 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|208167569|gb|GD965179.1|GD965179EST: TGGCACTTGAATCCTGTGAAGGTGGAGAACTTTTTGATCAAATAACCAGG AAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATC
genomic: TGGCACTTGAATCCTGTGAAGGTGGAGAACTTTTTGATCAAATAACCAGGgtaagctaac ... ctatgtgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATC
EST:
gi|207777797|gb|GD749760.1|GD749760EST: TGGCACTTGAATCCTGTGAAGGTGGAGAACTTTTTGATCAAATAACCAGG AAAGGTTGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATC
genomic: TGGCACTTGAATCCTGTGAAGGTGGAGAACTTTTTGATCAAATAACCAGGgtaagctaac ... ctatgtgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcatgcttgttactgcatgatatctactagcaacctttctgatttctatgtgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA
ttctgat putative branch site (score: 3)
cctttctgatttct CT-rich tract
atttctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttgggatatggaagttgttaatttgtaagctagtaactttctgcatgcttgttactgcatgatatctactagcaacctttctgatttctatgtgcagAAAGGTCGTCTATCAGAGAATGAGGCACGATTCTATGCAGCTGAAGTTATCGATGCTCTTGAATACATACATAATTTGGGAGTCATACATCGTGATATTA
- - - - - - - - - - - - - tgtaagc
- - - - - - - - - - - - - - - - - - - - - - -gcatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgat