Sequence
atgc intronic sequence ATGC exonic sequencegtaacctgatgttgttacttagtagtataaatccttgctatactaatataatcatgtgctaactcagaatcatcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTTGACAATGGTGTTGAAGAAGGCTTCATTAAGCATGGTGCTCGGAATATAC
Basic information
species | Glycine max |
transcript | GLYMA17G34510.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G34510.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G11950.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaacctgatgttgttacttagtagtataaatccttgctatactaatataatcatgtgctaactcagaatcatcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTTGACAATGGTGTTGAAGAAGGCTTCATTAAGCATGGTGCTCGGAATATAC
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gtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtt-tctgtagGTTGGTCTATTGAATGTTGATGGGTACTATAACAATTTGCTTGCTTTATTTGATACCGGTGTCGAAGAAGGTTTTATCAAGCCAGGTGCACGTAACATTG
upper sequence: GLYMA17G34510.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G26140.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaacctgatgttgttactt--agtagtataaatccttgctatac----------taatataatcatgtgctaactcagaatcatcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTTGACAATGGTGTTGAAGAAGGCTTCATTAAGCATGGTGCTCGGAATATAC
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gtagt-tgacaccgttccttttactggtatgtatctatataagaagatagatagatactatgttgatgatgagaatttggattattttctgcagGTTGGTCTTTTGAATGTTGATGGTTACTATAACAATTTGCTTGCTTTCTTTGACACTGGAGTTGAAGAAGGTTTTATTAAACAAGGTGCTTGTAATATCG
upper sequence: GLYMA17G34510.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv04s0008g01040.t01 (Vitis vinifera), 3'ss of exon 5
-----------------gtaacctgat---gttgttacttagtagtataaatccttgctatactaatataatcatgtgctaactcagaatcatcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTTGACAATGGTGTTGAAGAAGGCTTCATTAAGCATGGTGCTCGGAATATAC
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tatagatcaaaaatgcaaaatcctgttagagtggcaatttcatgaga-gaatattggatgaggtga-acaataatatcttaattaggcattactctacacagGTTGGTCTGCTAAATGTTGATGGGTACTACAACTTTTTGCTTGCATTATTTGACAACGGTGTCAAAGAAGGCTTCATCAAGCCAGGTGCTCGGCATATAGMapped 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|192312708|gb|FK004396.1|FK004396EST: AGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACCG GTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCCCGCATTATTT
genomic: AGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACCGgtaacctgat ... tcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTT
EST:
gi|298195489|gb|HO043880.1|HO043880EST: AGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACCG GTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTT
genomic: AGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACCGgtaacctgat ... tcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaatccttgctatactaatataatcatgtgctaactcagaatcatcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTTGACAATGGTGTTGAAGAAGGCTTCATTAAGCATGGTGCTCGGAATATAC
tgctaac putative branch site (score: 1)
tcatcctcc putative PPT
tatactaatataatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacctgatgttgttacttagtagtataaatccttgctatactaatataatcatgtgctaactcagaatcatcctccacagGTTGGTCTACTCAATGTTGATGGTTACTATAACTCTTTGCTCGCATTATTTGACAATGGTGTTGAAGAAGGCTTCATTAAGCATGGTGCTCGGAATATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG