Sequence
atgc intronic sequence ATGC exonic sequence...cagacctatgtttccctaaatcttattctattagttaaagtgctgcttttttaacctgttgcttcttttccattctcattttcttcattctcttatgcagACGTCTTCCCTTGCCTGAAAATGCTCTTTGTTTGATTGCTGCTGCAGCATTCTGTGCAGAGTATCTTCTATTCTACTTTCACTCAACAACACACAAAGGC
Basic information
species | Glycine max |
transcript | GLYMA16G17670.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G17670.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv02s0033g00010.t01 (Vitis vinifera), 3'ss of exon 1
cagacctatgtttccctaaatcttattctattagttaaagtgctgcttttttaacctgttgcttcttttccatt-ctcattttcttcattctcttatgcagACGTC-TTCCCTTGCCTGAAAATGCTCTTTGTTTGATTGCTGCTGCAGCATTCTGTGCAGAGTATCTTCTATTCTACTTTCACTCAACAACAC-ACAAAGGC
| || || | | | ||| | || ||| | | | | || | | | || || | | || ||| ||| | | | |||||||||| ||| ||||| || ||||||||||| |||| |||| |||||||||| | |||||||| || || |||||||||| | |||||
--tgattgctcttgatcggcctttttacaactagaaacagcaatgcaataatgagattttcatcagtaactatggctgaccatattttttcccttttttcagCTTAGTTCCCTTGCCAGAAGGAGCTCTCTGCTTGATTGCTGCCACAGCGTTCTCTGCAGAGTATTTCCTATTCTATTTCCATTCAACAACACCATAAAGG-Mapped 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|207773579|gb|GD745697.1|GD745697EST: ATGTTTCTTATCTTTTGGTTGTTTGTTGCTCTCCTCTCAGAAAAGACAAG ACGTCTTCCCTTGCCTG-AAATGCTCTTTGTTTGATTGCTGCTGCAGCATT
genomic: ATGTTTCTTATC-TTTGG-TG-TTGTTGCTCTCCTCTCAGAAAAGACAAGgttagttgtt ... tcttatgcagACGTCTTCCCTTGCCTGAAAATGCTCTTTGTTTGATTGCTGCTGCAGCATT
EST:
gi|151401969|gb|EV271782.1|EV271782EST: CTGATGTTTCTTATCTTTGGTGTTGTTGCTCTCCTCTCAGAAAAGACAAG ACGTCTTCCCTTGCCTGAAAATGCTCTTTGTTTGATTGCTGCTGCAGCATT
genomic: CTGATGTTTCTTATCTTTGGTGTTGTTGCTCTCCTCTCAGAAAAGACAAGgttagttgtt ... tcttatgcagACGTCTTCCCTTGCCTGAAAATGCTCTTTGTTTGATTGCTGCTGCAGCATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttttttaacctgttgcttcttttccattctcattttcttcattctcttatgcagACGTCTTCCCTTGCCTGAAAATGCTCTTTGTTTGATTGCTGCTGCAGCATTCTGTGCAGAGTATCTTCTATTCTACTTTCACTCAACAACACACAAAGGC
ttttaac putative branch site (score: 2)
cctgttgcttcttttc CT-rich tract
attttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagacctatgtttccctaaatcttattctattagttaaagtgctgcttttttaacctgttgcttcttttccattctcattttcttcattctcttatgcagACGTCTTCCCTTGCCTGAAAATGCTCTTTGTTTGATTGCTGCTGCAGCATTCTGTGCAGAGTATCTTCTATTCTACTTTCACTCAACAACACACAAAGGC
- - cctatgt
- - - - - - -ccctaaa
- - - - - - - - - - - - - - - - - - - agtgctg