Sequence
atgc intronic sequence ATGC exonic sequenceAGACTAGGTCTAGGACTGATGATCAGCAATGGCTCACTTATTGGGTTCTCTACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGTgtaagttaacaagttttgtttttttggtaaagaagtgttaagttaacaagtgaatatggacatttttggatgctatatattggtggtcaagtaatgttat...
Basic information
species | Glycine max |
transcript | GLYMA02G11770.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G11770.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os06g12220.1 (Oryza sativa), 5'ss of exon 3
AGACTAGGTCTAGGACTGATGATCAGCAATGGCTCACTTATTGGGTTCTCTACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGTgtaagttaacaagttttgtttttttggtaaagaagtgttaagttaa--caagtgaatatggacatttttggatgctatatattggtggtcaagtaatgttat-
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AAACAAAATCTCCTGTTGATGATCAGCAATGGCTCACTTACTGGGTGCTGTACTCGTTTATCACTTTGTTTGAGCTTACTTTTGCTCCAGTAATTGAATGgtaa--tgaccattttcctgggtcaggagattttttttttgtcttactcatttccttttgtttagcatttgatttccctcaaaaa-gttcagatttagcaaca
upper sequence: GLYMA02G11770.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g51290.2 (Oryza sativa), 5'ss of exon 3
AGACTAGGTCTAGGACTGATGATCAGCAATGGCTCACTTATTGGGTTCTCTACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGTgtaagttaacaagttttgtttttttggtaaagaagtgt-taagttaacaagtgaatatggacatttttggatgctatatattggtggtcaagtaatgttat---
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AAACAAAATCTGCTGTAGATGATCAGCAATGGCTCACATACTGGGTGTTGTACTCGTTTATCACTCTATTTGAGCTCACTTTTTCTCCGGTACTTGAATGgtaaaggttc---ttccacagcttgggggattattttcataatttatttgttcttgattggtgcctttag-tctagtgtgttgcattctgaatcttactacttc
upper sequence: GLYMA02G11770.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G130548_T03 (Zea mays), 5'ss of exon 3
AGACTAGGTCTAGGACTGATGATCAGCAATGGCTCACTTATTGGGTTCTCTACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGTgtaagttaacaagttttgtttttttggtaaagaagtgttaagttaacaagtgaatatggacatttttggatgctatatattggtggt-caagtaatgttat---
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AAACAAAATCTGCTGTGGATGATCAGCAATGGCTCACGTACTGGGTGCTGTACTCATTTATCACTCTATTCGAGCTCACCTTTGCTCCGGTACTCGAATGgtaaaacaacaaacttt-cagcacaagtgggcatttcaccagctt-tagttccatgtg--cagtttggaacttaccataatggtcatatgtggtatatttttta
upper sequence: GLYMA02G11770.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv01s0026g02190.t01 (Vitis vinifera), 5'ss of exon 3
AGACTAGGTCTAGGACTGATGATCAGCAATGGCTCACTTATTGGGTTCTCTACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGTgtaagttaacaagttttgtttttttggtaaagaagtgttaagttaacaagtgaatatggacatttttggatgctatatattggtggtcaagtaatgttat
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AGACCAAGTCTCGGGCGGATGATCAGCAATGGCTTACGTATTGGGTTCTGTATTCTTTGATCACACTCTTTGAGCTTACCTTTGCCAAGCTCCTCGAATGgtgagttagcttacactcccaattagatttatacttaaaatgagaggaagcaatgaccaaatttgcaaactgctgaatctttttatggagggaacacctcMapped 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|26058819|gb|CA801733.1|CA801733EST: TACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGT GCTTGCCATATGGCCCTATGCCAAGTTGATACTAAGTTGCTGGCTGGTTCT
genomic: TACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGTgtaagttaac ... ctaatttcagGCTTGCCATATGGCCCTATGCCAAGTTGATACTAAGTTGCTGGCTGGTTCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGACTAGGTCTAGGACTGATGATCAGCAATGGCTCACTTATTGGGTTCTCTACTCTTTGATCACACTCTTTGAGCTCACATTTGCCAAAGTTCTTGAAGTgtaagttaacaagttttgtttttttggtaaagaagtgttaagttaacaagtgaatatggacatttttggatgctatatattggtggtcaagtaatgttat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttggtgg