Sequence
atgc intronic sequence ATGC exonic sequencegtacgtctcattcttcaatttcaaaaatggactaatgagtgttcacataatggtttcatatgctgtttagagcaattacttacttctgtttaaagattgcttatctatgaagccatatgttcataactatgcttttaggtatgttttataatatgaaatgtcttaattaattttagGTAGGAGATTTTGGACTAGCAAGGTGGCAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTGATAGGAACATTTGG
Basic information
species | Glycine max |
transcript | GLYMA05G36280.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G36280.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g02430.t01 (Vitis vinifera), 3'ss of exon 5
gtacgtctcattcttcaatttcaaaaatggactaatgagtgttcacataatggtttcatatgctgtttagagcaattact-tacttctgtttaaagattgcttatctatgaagccatatgttcataactatgcttttagg-tatgttttataatatgaaatgtcttaattaattttagGTAGGAGATTTTGGACTAGCAAGGTGGCAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTGATAGGAACATTTGG
|| || | ||||| |||| | | | | ||| | | || | | | | ||| | ||| || | | | || | | |||| |||||||||||||| ||||||||||||||||||||||||||||| |||||||| | | || |||||||||||
-------------------------------------------------------------------------aacctctgtgtgtctgtgcaaaggatcatgaaccatgtgcct---ttctcttgcttgtctctaaaggatgtgtgggatctaacttcggcccctggtt--tctcagGTTGGAGATTTTGGACTGGCAAGGTGGCAGCCAGATGGAGACATGGGAGTGGAAACACGAATAATTGGAACATTTGG
upper sequence: GLYMA05G36280.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S336_36V6.1 (Physcomitrella patens), 3'ss of exon 6
gtacgtctcattcttcaatttcaaaaatggactaatgagtgttcacataatggtttcatatgctgtttagagcaattacttacttctgtttaaagattgcttatctatgaagccatatgttcataactatgcttttaggtatgttttataatatgaaatgtcttaattaattttagGTAGGAGATTTTGGACTAGCAAGGTGGCAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTGATAGGAACATTTGG
||||| | |||| | | ||| || || | | | | | | | || | | | || ||| || | | | ||| | | || | |||| |||||||||||||| ||||| ||||||||||| ||| | |||||||| |||||||| || || || || ||
---------------------------------------------------------gtatgca--tcgtagcagaaattcttttcaattcaagtagttccatttcctactcctaagctggcagattcttacacttgagtagtcattgagagaagttttgttctt-tggatatcagGTGGGAGATTTTGGACTCGCAAGATGGCAGCCAGACGGACATTGTGGTGTGGAGACCAGGGTTATTGGCACTTTCGG
upper sequence: GLYMA05G36280.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S59_359V6.1 (Physcomitrella patens), 3'ss of exon 5
gtacgtctcattcttcaatttcaaaaatggactaatgagtgttcacataatggtttcatatgctgtttagagcaattacttacttctgtttaaagattgcttatctatgaagccatatgttcataactatgcttttaggtatgttttataatatgaaatgtcttaattaattttagGTAGGAGATTTTGGACTAGCAAGGTGGCAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTGATAGGAACATTTGG
| | | || || | |||||| || | | | | ||||||||| || ||| |||| ||| || ||| | | | || | | | || ||| || | || | |||| |||||||||||||| ||||| ||||| ||||||||| | |||||||| |||||||| || || || || ||
------------------------------------------gtatgtggcg-ttccacacactgtttcgaacggtaaat-gtttctgttta--------ttgtctgaatggccacatgcctattcctaa---tgtggttac---cgacagcac-aagtgttttt-tggatatcagGTTGGAGATTTTGGACTTGCAAGATGGCAACCAGATGGACATTGTGGTGTGGAGACCAGGGTTATTGGCACCTTCGGMapped 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|13252447|gb|BG363358.1|BG363358EST: GTGACATGCGGCCAAACAATATTCTTCTCACTCATGATTTCGAGGCTTTA GTAGGAGATTTTGGACTAGCAAGGTGGCA
genomic: GTGACATGCGGCCAAACAATATTCTTCTCACTCATGATTTCGAGGCTTTAgtacgtctca ... ttaattttagGTAGGAGATTTTGGACTAGCAAGGTGGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cataactatgcttttaggtatgttttataatatgaaatgtcttaattaattttagGTAGGAGATTTTGGACTAGCAAGGTGGCAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTGATAGGAACATTTGG
tatgttttataatatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtctcattcttcaatttcaaaaatggactaatgagtgttcacataatggtttcatatgctgtttagagcaattacttacttctgtttaaagattgcttatctatgaagccatatgttcataactatgcttttaggtatgttttataatatgaaatgtcttaattaattttagGTAGGAGATTTTGGACTAGCAAGGTGGCAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTGATAGGAACATTTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA