Sequence
atgc intronic sequence ATGC exonic sequence...ccaaaagttataggactaatttaaaatacaaacctacaacttgactgatatgatagctttccataattctgttaagctttccatgttgggtgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
Basic information
species | Glycine max |
transcript | GLYMA10G05090.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os03g17120.1 (Oryza sativa), 3'ss of exon 8
-ccaaaagttataggactaatttaaaatacaaacctacaacttgactgatatgatagctttccataattctgttaagctttccatgttgggtgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
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gtttgactttcttagcctcgtattattctca----ttaggtttatttggtttgaca-ttatctttgttcttatca---tctctttattgaaaa---gttagATTGGAGGAGTGCCTATCAAAATAGGAGGAATGGCCAAAGGTTCTGGGATGATTCATCCAAATATGGCAACAATGCTTGGT
upper sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G044237_T01 (Zea mays), 3'ss of exon 7
ccaaaagttataggactaatttaaaatacaaacctacaacttgactgat-atgatagctttccataattctgttaagctttccatgttgggtgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
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-------------------------gtttgagtctcttggtttacttattgttatttccttagattttattgtcatatttttttttttgttcaa-aactagATTGGAGGAGTGGCTATTAGAATAGGTGGGATGGCTAAAGGTTCTGGAATGATTCACCCAAATATGGCAACAATGCTTGGT
upper sequence: GLYMA10G05090.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0040g03320.t01 (Vitis vinifera), 3'ss of exon 9
ccaaaagttataggactaatttaaaatacaaacctacaacttgactgatatgatagctttccataat----tctgttaagctttccatgttgggtgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
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----tcttttcctgtgaaattgccaatccatgtgtctgctcagacttccctttcattttgccaaggaagtatttgttattctgtctgattttggaaaaatgcagGTTGGAGGGACAAATATTAGAGTTGGGGGAATGGCAAAGGGTTCTGGGATGATCCATCCAAATATGGCTACCATGCTTGGTMapped 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|16277576|gb|BI942452.1|BI942452EST: CAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTG GTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATG
genomic: CAATCACCACGACAGATCTTGTTAGCAAGAGTGTGGCAATTGAGTCTCTGgtattacttg ... tgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatatgatagctttccataattctgttaagctttccatgttgggtgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
ataattct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaaaagttataggactaatttaaaatacaaacctacaacttgactgatatgatagctttccataattctgttaagctttccatgttgggtgttggttagGTTGGAGGAACTAGGGTCAGAGTTGGGGGAATGGCTAAAGGTTCTGGAATGATCCACCCAAATATGGCTACCATGCTTGGG
- - - - - - - - - - - - - -acaaacc
- - - - - - - - - - - - - - - - - - - - - - -tgatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gctttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttggg