Sequence
atgc intronic sequence ATGC exonic sequenceAGGAAAGCTCTTGAGATGGCAAAGGTAGACCCTGATGATCTTGACCTAATATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGGtatgggctcaggatgtatcttgttgagaataattctttacattctgctgttgtctttaacctttgtctagcaatcttttttttaaaaaaataaaaataaa...
Basic information
species | Glycine max |
transcript | GLYMA18G44350.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G44350.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv00s0233g00060.t01 (Vitis vinifera), 5'ss of exon 3
-AGGAAAGCTCTTGAGATGGCAAAGGTAGACCCTGATGATCTTGACCTAATATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGGtatgggctcaggatgtatcttgttgagaataattctttacattctgctgttgtcttta-acctttgt-ctagcaatcttttttttaaaaaaataaaaataaa
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GAAGAGGGCTCTTGAGATGGCGCAGGTTGATCCAGATGAAGTGGATCTGGTCTTGATGTGTACATCTACTCCAGAGGATCTTTTTGGTAGTGCTCCTCAGgtataagactaaatagc--cttggtaattgtcaccactcaagtgaaaagatcaatgtaacatcaatgtacttgcagttgagctccatggatgtcttcaatac-
upper sequence: GLYMA18G44350.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv02s0154g00140.t01 (Vitis vinifera), 5'ss of exon 3
-AGGAAAGCTCTTGAGATGGCAAAGGTAGACCCTGATGATCTTGACCTAATATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGGtatgggctcaggatgtatcttgttgagaataattctttacattctgctgttgtctttaacctttgtctagcaatcttttttttaaaaaaataaaaataaa--
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GAAGAGGGCTCTTGAGATGGCGCAGGTTGATCCAGATGAAGTGGATCTGGTCTTGATGTGTACATCTACTCCAGAGGATCTTTTTGGTAGTGCTCCTCAGgtataagactaaatagc--tttggtaattgtcaccactca-agtgaaaagatcaatgtaacatcaatgtacttgcagttgagctgcatggatgtcttcaatac
upper sequence: GLYMA18G44350.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S87_63V6.1 (Physcomitrella patens), 5'ss of exon 5
-AGGAAAGCTCTTGAGATGGCAAAGGTAGACCCTGATGATCTTGACCTAATATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGGtatgggctcaggatgtatcttgttgagaataattctttacattctgctgttgtctttaacctttgtctagcaatcttttttttaaaaaaataaaaataaa
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AAGGAAGGCCCTTGAAATGGCTAATGTGAATCCAGAGGATGTTGATTTGTTATTACTCTGCACATCTACTCCAGATGATCTATTTGGCAGTGCTCCGCAGgtatgacgtactgaaattgatgcacgtttgcgtgcaaagagatttagtgattgtcttgtaacatgaaacagaaagcatcttctgcaccattcaggtccta-
upper sequence: GLYMA18G44350.1 (Glycine max), 5'ss of exon 3
lower sequence: PP1S11_305V6.1 (Physcomitrella patens), 5'ss of exon 5
-AGGAAAGCTCTTGAGATGGCAAAGGTAGACCCTGATGATCTTGACCTAATATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGGtatgggctcaggatgtatcttgttgagaataatt-ctttacattctgc-tgttgtcttta-acctttgtctagcaatcttttttttaaaaaaataaaaataaa
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AAGGAAGGCCCTCGAAATGGCTAACGTGAAACCAGAGGATGTTGATTTGTTGTTGCTGTGTACATCTACTCCAGACGATCTATTTGGTAGTGCTCCACAGgtatgccgtattgaagtaattgcacgtgtgtgatcacataacagagtgtgtattttttctataactatgacgagggagcctctttt--gcactattaggttc--Mapped 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|20813442|gb|BQ297920.1|BQ297920EST: ATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGA TTCAAAAACAACTTGGCTGCAAAGCAAATCCATTGTCTTATGACATTACAG
genomic: ATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGGtatgggctca ... aacatgcagaTTCAAAAACAACTTGGCTGCAAAGCAAATCCATTGTCTTATGACATTACAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGGAAAGCTCTTGAGATGGCAAAGGTAGACCCTGATGATCTTGACCTAATATTGATGTGCACATCTACGCCAGAGGATCTTTTTGGTAGTGCTCCACAGGtatgggctcaggatgtatcttgttgagaataattctttacattctgctgttgtctttaacctttgtctagcaatcttttttttaaaaaaataaaaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaataa