Sequence
atgc intronic sequence ATGC exonic sequencegtacagaatgcacactttttcgtttgatgcttctcgagggaattgttttgcgttaacttttccccttcgttctaattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
Basic information
species | Glycine max |
transcript | GLYMA19G00850.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G00850.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0019g01240.t01 (Vitis vinifera), 3'ss of exon 1
gtacagaatgcacactttttc-gtttga-tgcttctcgagggaattgttttgc---gttaacttttccccttcgttc-------------taattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
||| |||| | | |||| | ||| || || |||| || || | ||| | | ||| | |||||||||| || |||| |||||||||||||||||||| || | |||||||| || |||||||| |||||||| |||||||||||||| |||||||| ||||||||||||||||
gtatcaaatgaggattctttctatgtgaatgtttagtagaatgcttgtattctacagtctgcctttttcttgtattcagtctgagataactgattgcaatgttatcttctagGCTGGATTTGCAGGAGATGATGCTCCTAGGGCTGTGTTCCCCAGCATTGTAGGTCGTCCCCGTCACACTGGTGTAATGGTTGGCATGGGCCAGAAAGATG
upper sequence: GLYMA19G00850.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S198_154V6.3 (Physcomitrella patens), 3'ss of exon 2
gtacagaatgcacactttttcgtttgatgcttctcgagggaattgttttgcgttaacttttcccctt-cgttctaattg-caatgtg-----tcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
| || | || || | | || | ||| | | ||| || | || | | | | | | | ||| | | | ||||| || || || |||||||| ||||| || || |||||||| ||||| || || || || | ||||||||||||||||| |||||||| ||||| || |
aaccttaacttgcgtaccctcaattttta-tcatcacttcatctgtctggagttcacatctcttgtaacatgatgagtaatcacgtgcggattttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG
upper sequence: GLYMA19G00850.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S198_157V6.3 (Physcomitrella patens), 3'ss of exon 2
-----------------------------------------------------------------------------------------gtacagaatgcacactttttcgtttgatgcttctcgagggaattgttttg-cgttaacttttccccttcgttctaattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
| | | | || |||| | | | ||| || | | | | || | | ||| |||| | | | | ||||| || || || |||||||| ||||| || || |||||||| ||||| || || || || | ||||||||||||||||| |||||||| ||||| || |
gtatgatattaactgttttgatgatgcatttgtattctccctatgtgatgaagtggcttgcaataaaatgcagttctaaagcatgtcatgggccaagctgggtcgttatcgtcttcttcacatcgtggtatctctgtgatcggcacaaaacctaaaatgttggtattgtgcggattttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG
upper sequence: GLYMA19G00850.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S198_157V6.1 (Physcomitrella patens), 3'ss of exon 2
-----gtacagaatgcacactttttcgtttgatgcttctcgagggaattgttttg-cgttaacttttccccttcgttctaattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
| | | | || |||| | | | ||| || | | | | || | | ||| |||| | | | | ||||| || || || |||||||| ||||| || || |||||||| ||||| || || || || | ||||||||||||||||| |||||||| ||||| || |
gtcatgggccaagctgggtcgttatcgtcttcttcacatcgtggtatctctgtgatcggcacaaaacctaaaatgttggtattgtgcggattttatgcagGCTGGTTTCGCTGGAGATGACGCCCCCCGCGCCGTGTTTCCGAGCATCGTGGGACGGCCGAGGCACACTGGTGTGATGGTCGGTATGGGACAGAAGGACG
upper sequence: GLYMA19G00850.1 (Glycine max), 3'ss of exon 1
lower sequence: PP1S381_18V6.2 (Physcomitrella patens), 3'ss of exon 2
---gtacagaatgcacactttttcgtttgatgctt----ctcgagggaattgttttgcgttaacttttccccttcgttctaattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
||| ||| ||| || || | | | ||| ||| || | | | | | | | || ||| | ||||| || || || ||||||||||| || || ||||||||||| ||||| || || || || | ||||||||||||||||| || ||||| ||||| || |
gtagtatcaaatctccacaaccgtcttctgtgtctaggtcatgttggacctgtgtttaggccaatcaacatgtaggagtaatatggtgcatgtaatg-cagGCCGGTTTCGCGGGAGATGATGCTCCCCGCGCTGTGTTTCCCAGCATCGTCGGACGGCCAAGGCACACTGGTGTGATGGTGGGCATGGGACAGAAGGACGMapped 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|193471379|gb|FK438496.1|FK438496EST: CTGAGGATATTCAACCCCTTGTTTGCGACAATGGAACAGGAATGGTTAAG GCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTT
genomic: CTGAGGATATTCAACCCCTTGTTTGCGACAATGGAACAGGAATGGTTAAGgtacagaatg ... gtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaattgttttgcgttaacttttccccttcgttctaattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
ttctaat putative branch site (score: 2)
tgtcttttc putative PPT
ttaactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacagaatgcacactttttcgtttgatgcttctcgagggaattgttttgcgttaacttttccccttcgttctaattgcaatgtgtcttttcagGCAGGATTTGCAGGAGATGATGCCCCACGTGCTGTGTTTCCTAGCATTGTTGGTCGTCCTCGTCACACTGGTGTGATGGTTGGTATGGGCCAGAAAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG