Sequence
atgc intronic sequence ATGC exonic sequencegtattttttttgttgttgcctttttttaaattttacttttgcatgttccattttcactaactaattgtatatagagccctagctgatccaaataaagttaatcacaaatttttcttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGGTTGGTTGGAAGTGCAACACCAA
Basic information
species | Glycine max |
transcript | GLYMA19G40050.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G353147_T01 (Zea mays), 3'ss of exon 14
gtattttttttgttgttgcctttttttaaattttacttttgca--tgttccattttcactaactaattgtatatagagccctagctgatccaaataaagttaatcacaaatttttcttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGGTTGGTTGGAAGTGCAACACCAA
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--------------------------gtaatgttgcctacccatttgttaaactgaaactggcaaatatcaagcaaag----aatgtattttcatcctgttactgattgtgacatgtt--taaaattccaactgtattgcagATAAGAACAGAAGATATGGATTTAATAGCAGAAAGAGGCATTGCTGCACATTACAGTGGAAGAAGGGTGGCTTCTGGACCTGTTGGCCTTGGAATATCAA
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G416698_T01 (Zea mays), 3'ss of exon 8
gtattttttttgttgttgcctttttttaaattttacttttgcatgttccattttcactaactaattgtatatagagccctagctgatccaaataaagttaatcacaaatttttcttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGGTTGGTTGGAAGTGCAACACCAA
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--------------------------gtaatgctgcctactcatttgttaacttga--aactggcaa-atatcaagcaatgaatgtatttcatcttgttgttgattgtgacttgtgtttaaaattccaactgtattgtagATAAGAACAGAAGATATGGATTTAATAGCAGAAAGAGGCATTGCTACACATTACAGTGGAAGAGGAGTGGTTTCTGGACCTGTTCGGCTTGGAATATCAA
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 15
lower sequence: GRMZM2G416698_T02 (Zea mays), 3'ss of exon 7
gtattttttttgttgttgcctttttttaaattttacttttgcatgttccattttcactaactaattgtatatagagccctagctgatccaaataaagttaatcacaaatttttcttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGGTTGGTTGGAAGTGCAACACCAA
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gtatgtttcatttggaagttcaggt---aatgctgcctactcatttgttaacttga--aactggcaa-atatcaagcaatgaatgtatttcatcttgttgttgattgtgacttgtgtttaaaattccaactgtattgtagATAAGAACAGAAGATATGGATTTAATAGCAGAAAGAGGCATTGCTACACATTACAGTGGAAGAGGAGTGGTTTCTGGACCTGTTCGGCTTGGAATATCAA
upper sequence: GLYMA19G40050.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv07s0005g00770.t01 (Vitis vinifera), 3'ss of exon 15
gtattttttttgttgttgcctttttttaaattttacttttgcatgttccattttcactaactaattgtatatagagccctagctgatccaaataaagttaatcacaaatttttcttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGGTTGGTTGGAAGTGCAACACCAA
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-----------------------------atggtgaatttaatggttagaattttgttaacc--tggaatgttgctttgaataacatgttgatttttaaaattatagattgcttttatctgtgt---------ttgacagATAAGAACTGAAGAGATGGATGTGATAGCTGAGAGAGGGATTGCTGCTCATTATAGTGGGAGAGTGTTCGTTGGTGGTTTAATTGGACGTGCAACCAGTGMapped 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|10846905|gb|BF069752.1|BF069752EST: CCACTGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCCAG ATTAGAACAGAAGAAATGGATTTGATA
genomic: CCACCGTGATTCCATTTTTGTATGAGAGCATGTTTAGGCTAGAAGTCCAGgtattttttt ... ctctttgcagATTAGAACAGAAGAAATGGATTTGATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atccaaataaagttaatcacaaatttttcttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGGTTGGTTGGAAGTGCAACACCAA
agttaat putative branch site (score: 4)
tactcttt putative PPT
aataaagttaatcaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttttttgttgttgcctttttttaaattttacttttgcatgttccattttcactaactaattgtatatagagccctagctgatccaaataaagttaatcacaaatttttcttattagtatgtcatactctttgcagATTAGAACAGAAGAAATGGATTTGATAGCTGAGAGGGGCATTGCTGCTCATTATAGTGGGAGAGAATTTGTCACAGGGTTGGTTGGAAGTGCAACACCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG