Sequence
atgc intronic sequence ATGC exonic sequencegtattgtttttgtggcccctcgggctcgttgttttacatgtttcctaaattaggaatatgattatatgactataatcattgcaaaattagttattatgaatcttgcctcaaagaattttaaaaaatatatatgacacagttgacatccttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
Basic information
species | Glycine max |
transcript | GLYMA07G40330.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G40330.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv12s0035g01130.t01 (Vitis vinifera), 3'ss of exon 7
gtattgtttttgtggcccctcgggctcgttgttttacatgtttcctaaattaggaatatgattatatgactataatcattgcaaaattagttattatgaatcttgcctcaaagaattttaaaaaatatatatgacacagttgacatccttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
| || ||| | |||| | | ||| | || | | | || | | || || | | | |||| ||| ||||| | | || ||||||||| ||||||||||| |||||||||||||||||||| ||||| |||||||||||||||||| | |||||||| || || || || || ||||||||||
-----------------------------------------------------------gcctagttgataa-----gttgcta---tggttgctctgttttctacttctca--ttcttcaaggtttaaaactttgaagttcacaa-----tgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGACGAGAATACCGTCTCATTCGTAACTCTGAACAAGGT
upper sequence: GLYMA07G40330.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv12s0035g01120.t01 (Vitis vinifera), 3'ss of exon 3
gtattgtttttgtggcccctcgggctcgttgttttacatgtttcctaaattaggaatatgattatatgactataatcattgcaaaattagttattatgaatcttgcctcaaagaattttaaaaaatatatatgacacagttgacatccttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
| || | || |||| | ||| || || | | |||| | ||||||| | ||| |||| ||| ||||| | | || ||||||||| ||||||||||| |||||||||||||||||||| ||||| |||||||||||||||||| |||||||| || || || || || ||| ||||||
-------------------------------------------------------gcctagttgataagttgctatggttgc---tctgtttactacttctcattcttcaagg---tttaaaa-----ctttga---agttcacaa-----tgaatatgttcatgattatgcagGATTCTGGGACATGTACGATCCCGAGGGATACTCTCTTTGGTTCTGTGATTACAAATACAATGCCGAGAATACCGTCTCATTCGTAACTCTGATCAAGGT
upper sequence: GLYMA07G40330.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ14564 (Selaginella moellendorffii), 3'ss of exon 6
gtattgtttttgtggcccctcgggctcgttgttttacatgtttcctaaattaggaatatgattatatgactataatcattgcaaaattagttattatgaatcttgcctcaaagaattttaaaaaatatatatgacacagttgacatccttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
| | | ||| | ||| | | ||| |||||| ||| | || ||||||||| ||||| |||||||| |||||||||||||| || ||||| || || ||||| ||||| | ||||| || || |||| ||||| ||||||||||
--------------------------------------------------------------------------------------------------------gtacaagtggtgtttccattgatcgcttgaaaatgctga-----ttttgatcccaaatctt----tgcagGATTCTGGGAGATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGT
upper sequence: GLYMA07G40330.1 (Glycine max), 3'ss of exon 7
lower sequence: EFJ26267 (Selaginella moellendorffii), 3'ss of exon 5
gtattgtttttgtggcccctcgggctcgttgttttacatgtttcctaaattaggaatatgattatatgactataatcattgcaaaattagttattatgaatcttgcctcaaagaattttaaaaaatatat--atgacacagttgacatccttttgaatcc-actttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
| || | | | || | |||| | | ||| || | | || ||||||||||| |||||||||||||| |||||||||||||| || ||||| || || ||||| ||||| | ||||| || || |||| ||||| ||||||||||
-------------------------------------------------------------------------------------------------------------------gtacaagtggtgtttccattgatcgcttgaaa--atgctgattctgatctcttcccttgcagGATTCTGGGACATGTATGACCCCGAGGGATACTCCCTGTGGTTCTGCGACTACAAGTACAACGATGAGAACACGGTGCCTTTCGTGACGATGAACAAGGTMapped 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|5666870|gb|AI930906.1|AI930906EST: AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAG GATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
genomic: AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAGgtattgtttt ... tatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
EST:
gi|193472678|gb|FK435343.1|FK435343EST: AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAG GATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
genomic: AAGACTCTACTCAAACACTAAAACCAACTTCAGGGAGGTTGCTATCAAAGgtattgtttt ... tatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaatatatatgacacagttgacatccttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
agttgac putative branch site (score: 4)
tccactttttatctt putative PPT
atatatatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgtttttgtggcccctcgggctcgttgttttacatgtttcctaaattaggaatatgattatatgactataatcattgcaaaattagttattatgaatcttgcctcaaagaattttaaaaaatatatatgacacagttgacatccttttgaatccactttttatcttgcagGATTTTGGGACATGTATGATCCCGAGGGATACTCTCTCTGGTTTTGTGATTACAAATACAATCAGGAGAATACTGTTTCTTTTGTGACATTGAACAAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA