Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG
Basic information
species | Glycine max |
transcript | GLYMA19G35370.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 3
lower sequence: AT5G43930.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagttttaactagt-----tgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG
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gtgagtgtcatggagtgcatatgttttattctttgtttttttg--cctttggattctc---actgtgttttgttttgtttt--gtgtagTGGTGATCATACTGTGAAGATTATTGATTGTGAAACTGGAAACTGCTTAAAAGTTTTGACTGGCCATAGGAGGACTCCTTGGGTA
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 3
lower sequence: AT5G43930.4 (Arabidopsis thaliana), 3'ss of exon 3
gtaagttttaactagt-----tgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG----
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gtgagtgtcatggagtgcatatgttttattctttgtttttttg--cctttggattctc---actgtgttttgttttgtttt--gtgtagTGGTGATCATACTGTGAAGATTATTGATTGTGAAACTGGAAACTGCTTAAAAGTTTTGACTGGCCATAGGAGGACTCCTTGGGTAGTAA
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 3
lower sequence: AT1G04140.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaagttttaactagttgatctcctctttactaatttgaatctatgaact-tttgtgattgaatcttgttatgtgttatg-----tgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG
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-----------gtaagtatcatgagtcgtatttgttggaattttttttttgtttgctaatgagtttttttttgtatttttaatcttgtagTGGTGACCACACTGTAAAAATTATTGATTGTGAGACAGGAAAATGCTTAAAAATATTGACTGGCCATCGAAGGACACCCTGGGTG
upper sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 3
lower sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 3
-------------------------------gtaagttttaactagttgatc--tcctctttactaatttgaatctatgaacttttgtgattgaatcttg---ttatgtgttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG
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gtaaattttaacttgtcttttcttttcttttctctattttacatttttgcaccgtcttttttatccgtaattatgtagccaggcttctaactgtactccaatcctatttcatactcacagTGGTGACCACACTGTAAAGATAATTGATTGCCATACTGGAAGCTGCTTAAAGGTGTTAACTGGTCATCGAAGGACACCTTGGGTGMapped 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|193597700|gb|FK552774.1|FK552774EST: ACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACA TGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAA
genomic: ACTATTGCAGCAGCATTTAGCCCAGATGGGAAAGTTCTTGCCTCCACACAgtaagtttta ... ttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG
tactaat putative branch site (score: 1)
tttgaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttaactagttgatctcctctttactaatttgaatctatgaacttttgtgattgaatcttgttatgtgttatgtgcagTGGTGACCACACAGTAAAGATAATTGATTGTGAAACTGGAAGTTGCTTAAAGGTGTTAGTTGGTCATAGGAGAACGCCTTGGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA