Sequence
atgc intronic sequence ATGC exonic sequence...cttgacactaaactaggagcagtttttgattttcgatttttgttgacttgttttgtttgtgtttttttttttttttttgtgtgtgtgtggagatctgcagAGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCAGCTATGGATGAGATAACAATTTTGCAGCAGATTGCGGAGGGAGATCCTG
Basic information
species | Glycine max |
transcript | GLYMA10G07430.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G07430.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os03g53720.2 (Oryza sativa), 3'ss of exon 1
cttgacactaaactaggagcagtttttgattttcgatttttgttgacttgttttgtttgtgt-ttttttttttttttttgtgtgtgtg---tggagatctgcagAGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCAGCTATGGATGAGATAACAATTTTGCAGCAGATTGCGGAGGGAGATCCTG
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---agtactgttttattcgttaatccc-accatcatcatacacgaaatgtatctgttcttatataccctttgtgtttctgaatttgttggttatatatatgcagAGATATGTGGCGCTGAAGGTGCAGAAGAGTGCACAGCACTACACAGAGGCGGCCATGGATGAGATCAAGATCTTGAAGCAGATTGCCGATGGTGATCCTG
upper sequence: GLYMA10G07430.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G53030.1 (Arabidopsis thaliana), 3'ss of exon 1
------------cttgacactaaactaggagcagtttttgattttcgatttttgttgacttgttttgtttgtgtttttttttttttttttgtgtgtgtgtggagatctgcagAGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCAGCTATGGATGAGATAACAATTTTGCAGCAGATTGCGGAGGGAGATCCTG
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gtacgcatctatctctctctctcgccacacgaattgcttgaaatgctttagagattaatttttcgttgctttgtttgtgtgattttctt-actcgtatatcga-atgtacagAGATATGTGGCTTTGAAGGTGCAAAAGAGTGCTCAGCATTATACTGAAGCAGCCATGGATGAGATAACAATATTGCAACAGATTGCAGAGGGAGACACTG
upper sequence: GLYMA10G07430.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g04220.t01 (Vitis vinifera), 3'ss of exon 1
----------cttgacactaaactaggagcagtttttgattttcgatttttgttgacttgttttgtttgtgtttttttttttttttttgtgtgtgtgtggagatctgcagAGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCAGCTATGGATGAGATAACAATTTTGCAGCAGATTGCGGAGGGAGATCCTG
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ttcctatgtgctcacgactaaat--ggagt-gttattagggaataatgtttttttaataaatttctttgtattaaataataacataattggcatatg-------ctgcagCGGTATGTGGCTCTGAAAGTTCAAAAGAGTGCTCAGCATTACACTGAAGCAGCTATGGATGAGATAACTATATTGCAACAGATTGCGGAAGGAGACCCAGMapped 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|254344738|gb|GR851328.1|GR851328EST: GCTGGGGCCATTTCTCCACTGTCTGGCTCGCTTGGGACACCAAACATTCT AGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCA
genomic: GCTGGGGCCATTTCTCCACTGTCTGGCTCGCTTGGGACACCAAACATTCTgtctcttctt ... agatctgcagAGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgttttgtttgtgtttttttttttttttttgtgtgtgtgtggagatctgcagAGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCAGCTATGGATGAGATAACAATTTTGCAGCAGATTGCGGAGGGAGATCCTG
tgttgac putative branch site (score: 3)
ttttgtttgtgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgacactaaactaggagcagtttttgattttcgatttttgttgacttgttttgtttgtgtttttttttttttttttgtgtgtgtgtggagatctgcagAGATACGTGGCTTTGAAAGTTCAGAAGAGTGCTCAGCACTACACTGAGGCAGCTATGGATGAGATAACAATTTTGCAGCAGATTGCGGAGGGAGATCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- tgacact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtgtg