Sequence
atgc intronic sequence ATGC exonic sequence...atgagccatgctttgtcatttcaatgtgtatctgagttacttttatagttttgtttgttttttttttaccttattcttatattgttacacttttgaacagATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAAAGTATCTTCAATATTGGCAACGCCCTGAATATATTAAATTTATTAT
Basic information
species | Glycine max |
transcript | GLYMA20G28990.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G28990.1 (Glycine max), 3'ss of exon 2
lower sequence: AT5G19910.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------atgagccatgctttgtcatttcaatgt--gtatctgagttacttttatagttttgttt----------gttttttttttaccttattcttatattgttacacttttgaacagATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAAAGTATCTTCAATATTGGCAACGCCCTGAATATATTAAATTTATTAT
| | ||| || ||| | ||| | | |||| | | | |||||| | ||| | ||||| ||||| | ||| | ||| || |||| |||| |||||||| || ||||| ||||||||||| ||||||||||| |||||||||||||| ||||| || || || || || || || |||||
gtaagtttagaattcgttctatggcttagggttttagtgttcgaaattgagatttaaaaagggatttgttctaaggcttagggtttgtacttaccacattctgcttttggt-tactgtttggcagACCTGGCACAGAATCGGTATTTTGAAGATGAAGCATTTATTGGATACTTGAAGTATCTTCAATACTGGCAGCGACCAGAGTACATCAAGTTCATTAT
upper sequence: GLYMA20G28990.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv16s0039g02760.t01 (Vitis vinifera), 3'ss of exon 3
-atg-agccatgctttgtcatttcaatgtgtatctgagttacttttatagttttgtttgttttttttttaccttattcttatattgttacacttttgaacagATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAAAGTATCTTCAATATTGGCAACGCCCTGAATATATTAAATTTATTAT
|| | | ||| || | | | | || | || || |||| || | | ||| || ||| || || | | | |||| ||||||||||||| ||||| || ||||| |||||||| |||||||| ||||| || || |||||||||||||||| || || || || ||||| || ||
agtgcaaaaaaaatttagtgttgaattcacttctttggtgtcattaattgtttagtct--ctgtttcttccctgatgattgcttattgaattttttactcagATTTGGCTCAAAATCGCTATTTTGAAGATGAAGCTTTCATTGGCTACTTGAAATACCTTCAATATTGGCAACAACCAGAGTACATAAAATTCATAATMapped 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|5342374|gb|AI794658.1|AI794658EST: GCTTGAATTGGAGTTTGTTCAGTGCCTTGCCAATCCTACCTACATCCACT ATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAA
genomic: GCTTGAATTGGAGTTTGTTCAGTGCCTTGCCAATCCTACCTACATCCACTgtatgatttt ... ttttgaacagATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAA
EST:
gi|19347522|gb|BM892402.1|BM892402EST: GCTTGAATTGGAGTTTGTTCAGTGCCTTGCCAATCCTACCTACATCCACT ATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAA
genomic: GCTTGAATTGGAGTTTGTTCAGTGCCTTGCCAATCCTACCTACATCCACTgtatgatttt ... ttttgaacagATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagttttgtttgttttttttttaccttattcttatattgttacacttttgaacagATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAAAGTATCTTCAATATTGGCAACGCCCTGAATATATTAAATTTATTAT
cactttt CT-rich tract
tttgttttttttttac 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgagccatgctttgtcatttcaatgtgtatctgagttacttttatagttttgtttgttttttttttaccttattcttatattgttacacttttgaacagATTTGGCTCAGAATCGATACTTTGAGGATGAAGCATTCATTGGATACTTAAAGTATCTTCAATATTGGCAACGCCCTGAATATATTAAATTTATTAT
- - -ccatgct
- - - - - - - - - - -caatgtg
- - - - - - - - - - - - - - - -ctgagtt