Sequence
atgc intronic sequence ATGC exonic sequence...aaaagaaaattattcatctctgtttaatgtttccatgatgttatttaaagagtttcctatcctgaatatctgattattttacaattgctattattttcagGGATTGAATTAGTTCTTGGAACTGGAGTTAAATCTGCTGATGTAAAACGTAAGACACTATTAACAACAACCGGAGAGACCATAAGTTACAAGATTCTTAT
Basic information
species | Glycine max |
transcript | GLYMA19G14500.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G14500.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv19s0014g05380.t01 (Vitis vinifera), 3'ss of exon 2
aaaagaaaattattcatctctgtttaatgtttccatgatgttatttaaagagtttcctatcctgaatatctgattattttacaattgctattattttcagGGATTGAATTAGTTCTTGGAACTGGAGTTAAATCTGCTGATGTAAAACGTAAGACACTATTAACAACAACCGGAGAGACCATAAGTTACAAGATTCTTAT-------------------
|| ||||| |||||||| |||||||||||||| | || ||||||||| ||| | |||| ||| | || ||||||||||||||||| ||
---------------------------------------------------------------------------------------------------------------gtccttggtactggagtcaaatctgctgatgtgaggcggaagacactactaaaagcaactggataaacaataagttacaagattctcatcattgcaacagGTGTTCGG
upper sequence: GLYMA19G14500.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv14s0066g01100.t01 (Vitis vinifera), 3'ss of exon 3
-----aaaagaaaattattcatctctgtttaatgtt-tccatgatgt-tatttaaagagtttcctatcctgaatatctgattattttacaattgctattattttcagGGATTGAATTAGTTCTTGGAACTGGAGTTAAATCTGCTGATGTAAAACGTAAGACACTATTAACAACAACCGGAGAGACCATAAGTTACAAGATTCTTAT
| || | || ||||| | || | | ||| | ||| || | ||| || | | || || || | || ||| | | | ||| |||||| | || ||||| ||| |||| |||||||||||||| | || ||||| ||| ||||| |||| ||||| || ||||||||||||||||| ||
aaagtactagcatatcattcaatcaaataaaagaacatggaagatatatatatatatagt---ctgttttcaacat---ggtacctgacttttgg-actctgcatagGAATTGAACTGGTCCTTGGTACTCGAGTCAAATCTGCTGATGTGAGGCGGAAGACGCTACTAACAGCAACTGGAGAAACAATAAGTTACAAGATTCTCATMapped 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|213610881|gb|DB963197.1|DB963197EST: TGTTGGTGCAAATGAGGAGAGGCTAACTCCAAAATGGTATAAAGAGCATG GGATTGAATTAGTTCTTGGAACTGGAGTTAAATCTGCTGATGTAAAACGTA
genomic: TGTTGGTGCAAATGAGGAGAGGCTAACTTCAAAATGGTATAAAGAGCATGgtaattatat ... ttattttcagGGATTGAATTAGTTCTTGGAACTGGAGTTAAATCTGCTGATGTAAAACGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaagagtttcctatcctgaatatctgattattttacaattgctattattttcagGGATTGAATTAGTTCTTGGAACTGGAGTTAAATCTGCTGATGTAAAACGTAAGACACTATTAACAACAACCGGAGAGACCATAAGTTACAAGATTCTTAT
atctgat putative branch site (score: 4)
ttattttc putative PPT
tgattattttacaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaagaaaattattcatctctgtttaatgtttccatgatgttatttaaagagtttcctatcctgaatatctgattattttacaattgctattattttcagGGATTGAATTAGTTCTTGGAACTGGAGTTAAATCTGCTGATGTAAAACGTAAGACACTATTAACAACAACCGGAGAGACCATAAGTTACAAGATTCTTAT
- aagaaaa
- - - - - - - - - - - - - - - - ccatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caattgc