Sequence
atgc intronic sequence ATGC exonic sequence...gatatgattatgaatgtaatattaggaaactaaggatgtgaaatatcaaacaagcttgctattaagttggtaaagttagaaactgacttcttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTCCGCTCTCATTTTTCTCAATCTATCAATTGGTCTGGTATTCGGTACTATT
Basic information
species | Glycine max |
transcript | GLYMA05G35860.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g67870.1 (Oryza sativa), 3'ss of exon 12
gatatgattatgaatgtaatattaggaaactaaggatgtgaaatatcaaacaagcttgctattaa-gttggtaaagttagaaactg-acttcttttgaac----------agGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTCCGCTCTCATTTTTCTCAATCTATCAATTGGTCTGGTATTCGGTACTATT
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---------gtgagtttccctttcaacgcacctacttatttattatttagttatcttgcttttcctattatcatgatttgtaactttgttttggttgaactttcaattttagGTCTTCATAGCTGTGTTGGTAGACAACTTTCTCTACCCTATATCTGCATTCAGGTCTCATTTTTCCCAATCAATCAATTGGTCTGGTATCAGGTACCACC
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 12
----------gatatgattatga-atgtaatattaggaaactaaggatgtgaaatatcaaacaagcttgctattaagttggtaaagtta--gaaactgacttcttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTCCGCTCTCATTTTTCTCAATCTATCAATTGGTCTGGTATTCGGTACTATT
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gtgagtgtccctttccaccacaccaaataattttaggaccctgacttttttttttttctccccgg-tcgtaacctatccagtaaccttactatggctgggctttcaatttcagGTGTTCATCGCTGTGTTGGTAGACAACTTCCTCTATCCAGTATCCGCAATCCGGTCGCATTTCTCCCAATCAATCAACTGGTCTGGCATCCGGTACTACT
upper sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 12
gatatgattatgaatgtaatattaggaaactaaggatgtgaaatatca-aacaagcttgctattaagttggtaaagttag-aaactg--acttcttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTCCGCTCTCATTTTTCTCAATCTATCAATTGGTCTGGTATTCGGTACTATT
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tgtatgtcattcaatttagta----gaagcttggggttgttaatatcatgatgatgctgttcaataattactaatgtaaataaattggtactcaatttgagcagGTGTTTATTGCATTGCTGGTGGATAATTTTTTGTACCCTGTTTCTGCATTCCGTTCACATTTGACTCAATCTATCAATTGGTCTGGTATCAGATACCACTMapped 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|19053105|gb|BM731772.1|BM731772EST: TATCTCCCGAGGCACCACAACTCTTTCTCGCTTCTTATAATTGGTGTCTT GTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTC
genomic: TATCTCCCGAGGCACCACAACTCTTTCTCGCTTCTTATAATTGGTGTCTTgtaagtattt ... ttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaacaagcttgctattaagttggtaaagttagaaactgacttcttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTCCGCTCTCATTTTTCTCAATCTATCAATTGGTCTGGTATTCGGTACTATT
aactgac putative branch site (score: 2)
cttctttt CT-rich tract
tattaagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatatgattatgaatgtaatattaggaaactaaggatgtgaaatatcaaacaagcttgctattaagttggtaaagttagaaactgacttcttttgaacagGTGTTCATCGCAATGCTGGTGGATAACTTTCTTTATCCTGTGTCTGCATTCCGCTCTCATTTTTCTCAATCTATCAATTGGTCTGGTATTCGGTACTATT
- - - - - -gaatgta
- - - - - - - - - - - - -gaaactaa
- - - - - - - - - - - - - - - - -ggatgtg
- - - - - - - - - - - - - - - - - - - - - - -tcaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -gcttgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttggta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgactt