Sequence
atgc intronic sequence ATGC exonic sequence...ttggcgtgtcttgctgtttatattctatcaaggttatcgtatatgcatgtgcctcacctggggattcttaatttttgtcattatacatgctattccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGTTGGTGGTGGATGCTTACTCTGTCTTCATACAGTATTTACCGATTCAACGA
Basic information
| species | Glycine max |
| transcript | GLYMA01G38740.2 |
| intron # | 1 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G38740.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv00s0207g00200.t01 (Vitis vinifera), 3'ss of exon 1
ttggcgtgtcttgctgtttatattctatcaaggttatcgtatatgcatgtgcctcacctggggattcttaatttt----tgtcattatacatgct-attccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGTTGGTGGTGGATGCTTACTCTGTCTTCATACAGTATTTACCGATTCAACGA
||| || || | || || | || | |||| | | || | || |||| | | | | ||||||| | |||| | ||| ||||| ||||||||||| ||||| |||||||||||||||| | ||| ||| |||||||||| ||||||||||| | | | | | | ||||| |
----tgtgaattactttgtaccttttttcgattttattatgga-acaggaaaatcttctggatcatttctttcctgcaatgtcattgttcatgttgattttgcagCTTCTTGGTAACAGTTATGGGCTTGGTAATTCCATGGAGTTTGACACTGTCACTGGTGGATGCATACTCTGTCTTTGTTAAATGTCCTCTGCATCAACCAMapped 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|120494057|gb|EH222224.1|EH222224EST: CTTCGCTTCATGTGTTTGGACGTTGGTTTCTACTCTTACATTGCTTTCTG CTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGTT
genomic: CTTCTCTTCATGTGTTTGGACGTTGGTTTCTACTCTTACACTGCTTTCTGgtacttcact ... tattccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGTT
EST:
gi|23732942|gb|BU764652.1|BU764652EST: TTCTCTTCATGTGTTTNGGACGTTGGTTTCTACTCTTACACTGCTTTCTG CTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGT
genomic: TTCTCTTCATGTGTTT-GGACGTTGGTTTCTACTCTTACACTGCTTTCTGgtacttcact ... tattccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtgcctcacctggggattcttaatttttgtcattatacatgctattccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGTTGGTGGTGGATGCTTACTCTGTCTTCATACAGTATTTACCGATTCAACGA
tcttaat putative branch site (score: 3)
ctattcc putative PPT
attcttaatttttgtc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttggcgtgtcttgctgtttatattctatcaaggttatcgtatatgcatgtgcctcacctggggattcttaatttttgtcattatacatgctattccacagCTATTTGGTAACAGTCATGGGTTTGGTAATTCCATGGAACATAACATTGTTGGTGGTGGATGCTTACTCTGTCTTCATACAGTATTTACCGATTCAACGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- -gcgtgtc
- - - - - -tgctgtt
- - - - - - - - - - - - - - - - - - - - - -tgcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tacatgc
