Sequence
atgc intronic sequence ATGC exonic sequence...atcagcctgagaggtatctaacttttaactttaattttcatctaattttattgtttgtatgaagaattttaataaacactaatttctatggtatgagcagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCTGTAAAAAGTGGCTGGGATCAGTATGGAATTGATTATGG
Basic information
species | Glycine max |
transcript | GLYMA17G05550.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05550.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 3
atcagcctgagaggtatctaacttttaactttaattttcatctaatt-ttattgtttgtatgaagaattttaataaacactaatttctatggtatgagcagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCTGTAAAAAGTGGCTGGGATCAGTATGGAATTGATTATGG
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------------------------------gtaatgttgaattgttgaccacaaatcataatgtagattcctat---ttctcacatata-agtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
upper sequence: GLYMA17G05550.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G047414_T01 (Zea mays), 3'ss of exon 3
atcagcctgagaggtatctaacttttaactttaattttcatctaattttattgtttgtatgaagaattttaat--aaacactaatttctatggtatgag------cagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCTGTAAAAAGTGGCTGGGATCAGTATGGAATTGATTATGG
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-----tcctgtctata-ctaactcttgcact--agttacaggtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatataagtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
upper sequence: GLYMA17G05550.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 3
--atcagcctgagaggtatctaacttttaactttaattttcatctaattttattgtttgtatgaagaattt-taataaacactaatttctatggtatgagcagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCTGTAAAAAGTGGCTGGGATCAGTATGGAATTGATTATGG
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gcatttgccctagtacttccaagttcatgaat---gtttttccttaattatttatattatattcagtatcagtgacttcaaccaatctttattgcataaacagATTCATGTGAGGATATGGTGATTGAAGACTGTTATATTAGTGTTGGAGATGATGGAATTGCAATAAAGAGTGGTTGGGATCAGTATGGAGTTGCCTATGGMapped 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|193517267|gb|FK477274.1|FK477274EST: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTG ACTCTTATGAGGATATGCTGATAGAGG
genomic: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTGgcaagtatct ... gtatgagcagACTCTTGTGAGGATATGCTGATAGAGG
EST:
gi|298170188|gb|HO018812.1|HO018812EST: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTG ACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATG
genomic: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTGgcaagtatct ... gtatgagcagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttattgtttgtatgaagaattttaataaacactaatttctatggtatgagcagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCTGTAAAAAGTGGCTGGGATCAGTATGGAATTGATTATGG
cactaat putative branch site (score: 2)
tatgaagaattttaat 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcagcctgagaggtatctaacttttaactttaattttcatctaattttattgtttgtatgaagaattttaataaacactaatttctatggtatgagcagACTCTTGTGAGGATATGCTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCTGTAAAAAGTGGCTGGGATCAGTATGGAATTGATTATGG
- -agcctga
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