Sequence
atgc intronic sequence ATGC exonic sequence...ttgctctagttcttaaattattctcgtcgtagttaaatgtctatctcaataaacccagatagtagtgttaatctatgttggttttatatttttttttcagGGTAAACAAACCTTATTTACCTATAGCTGCTGGAGATCTTTCTGTCCAATCTGCATGGTTCTTGGTTATATTTTTTGCAGCTGCTGGCCTGTCAATTGTG
Basic information
species | Glycine max |
transcript | GLYMA02G26820.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G26820.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G113476_T02 (Zea mays), 3'ss of exon 3
-------ttgctctagttct-taaattattctcgtcgtagttaaatgtctatctcaataaacccagatagtagtgttaatctatgttggttttatatttttttttcagGGTAAACAAACCTTATTTACCTATAGCTGCTGGAGATCTTTCTGTCCAATCTGCATGGTTCTTGGTTATATTTTTTGCAGCTGCTGGCCTGTCAATTGTG
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ttacaatttgcgaagggaatatgaattaat---attggaagtaaatatttct---aacaattctttcttgca-catcaaacatttctgattttatgctactgaa-cagGGTAAACAAGCCATATTTACCCATTGCTGCTGGTGATCTCTCAATTCAGTCAGCATGGTTGTTGGTGATATTATTTGCAGCTGCAGGTTTTTCAATTGTT
upper sequence: GLYMA02G26820.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G113476_T01 (Zea mays), 3'ss of exon 3
ttgctctagttcttaaattattctcgtcgtagttaaatgtctatctcaataaacccagatagtagtgttaatctatgttggttttatatttttt--tttcagGGTAAACAAACCTTATTT---ACCTATAGCTGCTGGAGATCTTTCTGTCCAATCT--GCATGGTTCTTGGTTATATTTTTTGCAGCTGCTGGCCTGTCAATTGTG
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--atgctactgaacagggtaaacaagccatatttacccattgctgctggtgatctctcaattcagtcagcatggttgttggtgatattatttgcagctgcagGTTTTTCAATTGTTATATCAAACTTTGGACCTTTCATTACCTCTCTATACTGCCTTGGCCTATTTCTTGGCACTATATATT----CTGTTCCTCCATTCAGACT-
upper sequence: GLYMA02G26820.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0007g07200.t01 (Vitis vinifera), 3'ss of exon 3
ttgctctagttcttaa--attattctcgtcgtagttaaatg-tctatctcaataaacccagatagtagtgttaatctatgttggttttatatttttttttcagGGTAAACAAACCTTATTTACCTATAGCTGCTGGAGATCTTTCTGTCCAATCTGCATGGTTCTTGGTTATATTTTTTGCAGCTGCTGGCCTGTCAATTGTG
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--gtttgattgcttgggcattacttattttgtgtcttgacaatttattggcatacacgctaat-gcaattctcatgttagttcctgttctctttcttttgcagGGTAAATAAACCTTATTTACCTATTGCTGCGGGTGACCTTTCAGTTCAGTCTGCATGGTTTTTGGTATTGTTTTTTGCTGTAGCAGGCGTTTTGATTGTCMapped 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|192309721|gb|FK002917.1|FK002917EST: TGGAGATTTTTAAGGCCACATACTATACGTGGTACAGCACTAGGTTCATT GGTAAACAAACCTTATTTACCTATAGCTGCTGGAGATCTTTCTGTCCAATC
genomic: TGGAGATTTTTAAGGCCACATACTATACGTGGTACAGCACTAGGTTCATTgtgagtaact ... tttttttcagGGTAAACAAACCTTATTTACCTATAGCTGCTGGAGATCTTTCTGTCCAATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaataaacccagatagtagtgttaatctatgttggttttatatttttttttcagGGTAAACAAACCTTATTTACCTATAGCTGCTGGAGATCTTTCTGTCCAATCTGCATGGTTCTTGGTTATATTTTTTGCAGCTGCTGGCCTGTCAATTGTG
tgttaat putative branch site (score: 3)
ttttatattttttttt putative PPT
ttaatctatgttggtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctctagttcttaaattattctcgtcgtagttaaatgtctatctcaataaacccagatagtagtgttaatctatgttggttttatatttttttttcagGGTAAACAAACCTTATTTACCTATAGCTGCTGGAGATCTTTCTGTCCAATCTGCATGGTTCTTGGTTATATTTTTTGCAGCTGCTGGCCTGTCAATTGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - acccaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gttggtt