Sequence
atgc intronic sequence ATGC exonic sequence...atcaaaatctaaaaccaaaatatctctacctagcctcaagaaattattggcaatcaacaatagcgataattaatattcttgtttaaataaatgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTTCCTTGGGA
Basic information
species | Glycine max |
transcript | GLYMA15G01560.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G01560.1 (Glycine max), 3'ss of exon 1
lower sequence: AT3G15540.1 (Arabidopsis thaliana), 3'ss of exon 1
atcaaaatctaaaaccaaaatatc--tctacctagcctcaagaaattattggcaatcaacaatagcgataattaatattcttgtttaaataaatgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTTCCTTGGGA
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-accacttgtatagttgtattgttaattagacttttctatataccgaattcgccat-attatcaacacaattttaaatttacatatatacatatttgtgcagGTGTGGCCTTGAAAGATGGTGACAACTGCGAATACGTTACCATATACGAAGACAAAGATGGAGACTGGATGCTCGCCGGTGATGTACCTTGGGG
upper sequence: GLYMA15G01560.1 (Glycine max), 3'ss of exon 1
lower sequence: AT1G52830.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------------------------atcaaaatctaaaaccaaaatatctctaccta------gcctcaagaaattattg-gcaatcaacaatagcgat------aattaatattcttgtttaaataaatgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTTCCTTGGGA
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gttagtaatggcatggactaatttcccgtaacgttagttaatagttacatgaccatgtttataattgagctataaactttatatatacgtattgttagggtttctatatatattggaagtgtgaagagagtaaaacacatatattagttggaactttatgaaatataacacatgtatatataaactatg-cagG---AGTGGCGAAGGAGGGTAAGAAGTGTGAATACATTATTATATACGAAGACAAGGATAGAGACTGGATGCTCGTCGGAGATGTACCTTGGCA
upper sequence: GLYMA15G01560.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv09s0002g05150.t01 (Vitis vinifera), 3'ss of exon 1
-atcaaaatctaaaaccaaaatatctctacctagcctcaagaaattattggcaatcaacaatagcgataattaatattcttgtttaaataaatgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTTCCTTGGGA
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gatgagcgtatttttcgagatttatgataatcaaaatctatggctccaccacaaaacccttgaagaagaactaattcttttgtt-aaatatgtgttggcagGTGAAGCATTGAAAGATGCAGATAGTTCAGAGTATATTCCCATATATGAGGACAAAGATGGGGACTGGATGCTTGTAGGAGATGTTCCTTGGGAMapped 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|192322848|gb|FK014779.1|FK014779EST: TTCGGAGCTAGCCTTGGCCTTGGAGAAGTTCTTCGGTTGCTATGGAATTG GCTCAGCGTTGAAGGATGAGGAGAATGTTGTACAAGTTCCCATATACGAGG
genomic: TTCGGAGCTAGCCTTGGCCTTGGAGAAGTTCTTCGGTTGCTATGGAATTGgtaagttaca ... atgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attggcaatcaacaatagcgataattaatattcttgtttaaataaatgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTTCCTTGGGA
aattaat putative branch site (score: 3)
aatagcgataattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcaaaatctaaaaccaaaatatctctacctagcctcaagaaattattggcaatcaacaatagcgataattaatattcttgtttaaataaatgttgacagGCTCAGCGTTGAAGGATGAGGAGAATGTTGAACAAGTTCCCATATACGAGGACAAAGATGGTGACTGGATGCTCGTTGGAGATGTTCCTTGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- caaaatc
- - - - - - -accaaaa
- - - - - - - - - - - -ctctacc
- - - - - - - - - - - - - - - - - - - - - - - - -gcaatca