Sequence
atgc intronic sequence ATGC exonic sequence...tatattcattcctgaaatttcccaaccttttgtttatgtgcgttgcattttttaaattgttacatataatacaaatgcactaaagatatttggtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
Basic information
species | Glycine max |
transcript | GLYMA10G05890.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os12g07450.3 (Oryza sativa), 3'ss of exon 10
tatattcattcctgaaatttcccaaccttttgtttatgtgcgttgca--ttttttaaattgttacatataatacaaatgcactaaagatatttggtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
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--tggttagttatagtgatgagattcatttgggcaagttatttggcaattctttttacatgttctatcgctggcataacttttcactgtttcatgctcctagGACACACAACTGCTTCTGTGGGACCTGGCATTGGATGAGATTGCTGTCCCACTACGACATCCTTCCAGTGGCTCACCAACTTTTAGTAGCGGCAGCCCTT
upper sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 11
lower sequence: AT2G37160.2 (Arabidopsis thaliana), 3'ss of exon 10
tatattcattcctg---aaatttcccaaccttttgtttatgtgcgttgcattttttaaattgttacatataatacaaatgcactaaagatatttggtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
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tgtggtcattgtttgataacttatactatgatcatctttggggttttgggccttttggcttg---cattccatgtctttattcccttttcttgtgccgaacagGACACACAGTTACTGCTATGGGACCTAGAAATGGATGAGATTGTTGTTCCCCTACGGCGACCTCCAGGAGGATCACCCACTTACAGCACAGGGAGTCAGT
upper sequence: GLYMA10G05890.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
tatattcattcctgaaatttccca-----accttttgtttatgtgcgttgcattttttaaattgttacatataatacaaatgcactaaagatatttg-gtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
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---atcaatttaaaaaaaatcgtatttatacattttgttgttctgctccacatgtcttca--tgtc-catgttgaaccattgtgcaacttgtctttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAATMapped 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|207766359|gb|GD738715.1|GD738715EST: CAAATGATGATGAAGAGACCATTAGATATCGATTTGGTTCTGTTGGTCAG GACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCC
genomic: CAAATGATGATGAAGAGACCATTAGATATCGATTTGGTTCTGTTGGTCAGgtacccagac ... tggtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttttaaattgttacatataatacaaatgcactaaagatatttggtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
cactaaa putative branch site (score: 2)
tttaaattgttacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatattcattcctgaaatttcccaaccttttgtttatgtgcgttgcattttttaaattgttacatataatacaaatgcactaaagatatttggtggttagGACACACAATTGCTTCTATGGGACCTGGAAATGGATGAGATTGTGGTACCCTTGCGACGTCCTTCTGGTGGATCCCCAACTTACAGTGCTGGAAGCCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - cattcct
- - - - - - - - - - -ccaacct
- - - - - - - - - - - - - - - - - tatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgcac