Sequence
atgc intronic sequence ATGC exonic sequence...tatcagcctgagaggtatctaagtttaactggaattttcatctaattttattgtttgtatgaagaattttaataaacactaatttttatggtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG
Basic information
species | Glycine max |
transcript | GLYMA13G17170.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os09g26800.1 (Oryza sativa), 3'ss of exon 3
tatcagcctgagaggtatctaagtttaactggaatt-ttcatctaattttattgtttgtatgaagaattttaataaacactaatt--tttatggtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG
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-gacaaccctgta--ttcctacatcatgttggagtcatttgtattatttagtaaactttatgcttcactagtaagattctcaattattttactatatatgcagATTCTTGTGAGAATGTAGTGATTAAAAACTGCTATATTTCTGTTGGTGATGATGGGATTGCTATAAAGAGTGGTTGGGACCAATATGGAATTGCTTATGG
upper sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 3
tatcagcctgagaggtatctaagtttaactggaattttcatctaattttattgtttgtatgaagaattttaataaacactaatttttatggtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG
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----------------------gtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatata-----------agtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
upper sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G047414_T01 (Zea mays), 3'ss of exon 3
tatcagcctgagaggtatctaagtttaactggaattttcatctaattttattgtttgtatgaagaattttaataaaca---ctaatttttatg-----gtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG
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------tcctgtctata-ctaactcttgcactagtta-caggtaatgttgaattgttgaccacaaatcataatgtagattcctatttctcacatataagtgtatgcagATTCTTGTCAGGATGTGCTTATTGAGAATTGCTACATATCGGTTGGCGATGATGCAATAGCTATAAAGAGTGGTTGGGATCAGTATGGTATTGCATACGG
upper sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 3
-tatcagcctgagaggtatctaagtttaactggaattttcatctaattttattgtttgtatgaagaattt-taataaacactaatttttatggtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG
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gcatttgccctagtact-tccaagttca-tgaatgtttttccttaattatttatattatattcagtatcagtgacttcaaccaatctttattgcataaacagATTCATGTGAGGATATGGTGATTGAAGACTGTTATATTAGTGTTGGAGATGATGGAATTGCAATAAAGAGTGGTTGGGATCAGTATGGAGTTGCCTATGGMapped 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|7589017|gb|AW704800.1|AW704800EST: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTG ACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATG
genomic: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTGgcgagtatct ... gtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATG
EST:
gi|298194604|gb|HO043076.1|HO043076EST: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTG ACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATG
genomic: TATATTGGCTCCTGTGTTTGGAGCTCCAAATACTGATGGCATAGATCCTGgcgagtatct ... gtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttattgtttgtatgaagaattttaataaacactaatttttatggtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG
cactaat putative branch site (score: 2)
tttgtatgaagaattt 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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatcagcctgagaggtatctaagtttaactggaattttcatctaattttattgtttgtatgaagaattttaataaacactaatttttatggtatgaacagACTCTTGTGAGGATATGTTGATAGAGGACTGTTACATAAGTGTGGGAGATGATGCAATTGCAATAAAAAGTGGCTGGGATCAGTATGGAATTGCTTATGG
- - agcctga
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