Sequence
atgc intronic sequence ATGC exonic sequence...aattgatagccgttaatgaatattgaatgctgactgcgggatagagtaagttgagtatcacatttttgtgagagaagttttattaacggtatgattgcagGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
Basic information
species | Glycine max |
transcript | GLYMA07G37050.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 1
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 1
aattgata-gccgttaatgaatattgaatgctgactgcgggatagagtaa-gttgagtatcacatttttgtgaga--gaagttttattaacggtatgattgcagGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
| ||| ||| | || | | | | | | | || | | | | || | | | | | || | ||||| ||||| | | |||| | ||||| ||||| | ||||||||||| || ||||| || || || ||| |||||||||| |||||||||||||| | || || |||||| | |
cttcaatatgccaattttggaatcgtactagctattactgtatttctttacggtattcatgatctcatcgagtgattgttgttttgataacgttgta----tagGGACTCAAAACTGCTATCATTGAAGGAGATGTTGTTGGAGGTACTTGCGTTAACAGAGGCTGTGTGCCTTCCAAAGCTCTACTTGCTGTTAGTGGTAGGA
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 1
aattgatagccgttaatgaatattgaatg--ctgactgcgggatagagtaagttgagtatcacatttttgtgagagaagttttattaacggtatgattgc-agGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
|| | | | || || |||| | || || ||| | | | || | | ||| || | | | | || |||| | |||||||| ||| | ||||||||||| || |||||||| ||||| ||| |||| ||||| ||||| ||||||||| | || || |||||||| |
----------gtttgaagtttcttatataacctgatttgatgaaagtaaaagatttgctctgc----ttattatggaaacattggtgattttgtttgtgttagGGACTTAAAACAGCCATTATTGAAGGAGATGTTGTTGGAGGGACTTGTGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAA
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 1
lower sequence: PP1S35_94V6.1 (Physcomitrella patens), 3'ss of exon 1
------------------------------------aattgatagccgttaatgaatattgaatgctgactgcgggatagagtaagttgagtatcacatttttgtgagagaagttttattaacggtatgattgcagGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
|| | || | ||| || || |||| | | || | |||| | | | || | | | || | | | || |||| ||||| || || || | || |||||||| ||||| || || || ||||||||||| ||||| ||||| |||||||| ||||| |||||||| || |
gtgcgctggtttgatccagactttgctctgtttgtggggtgcctctcattgtgtcacattccttgttg-ctgctgcac-gaatggacgtggtattcaacgt--gggattggtgcatgatgggcaatgacaatgtagGGGTTGAAGACGGCAATCATCGAGGGAGATGTAGTGGGCGGAACTTGCGTGAACCGAGGGTGTGTACCTTCGAAAGCTCTCTTGGCTGTGAGTGGACGGA
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ16882 (Selaginella moellendorffii), 3'ss of exon 1
aattgatagccgttaatgaatattgaatgctgactgcgggatagagtaagttgagtatcacatttttgtgagagaagttttattaacggtatgattgcagGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
| || | | | || || | ||| ||| | ||| |||||| | || | || ||||| | || || || || | |||| ||| | || |||||||| |||||||| ||||| || |||||||||||||| || ||||||||||||| || |
----gtaagttccttctttttcttcgcgtctagcctcggagagaagtgaattg---------------cgagagatctctttctcttcgtc------cagGGGCTCAAGACCGCCATCATCGAAGCAGACATTGTTGGAGGGACTTGTGTGAATCGAGGGTGCGTTCCTTCCAAAGCGCTCCTGGCCGTGAGTGGACGCA
upper sequence: GLYMA07G37050.2 (Glycine max), 3'ss of exon 1
lower sequence: EFJ06739 (Selaginella moellendorffii), 3'ss of exon 1
aattgatagccgttaatgaatattgaatgctgactgcgggatagagtaagttgagtatcacatttttgtgagagaagttttattaacggtatgattgcagGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
| | || | | || || | | ||| | | ||| |||||| | || | || ||||| | || || || || | |||| ||| | || |||||||| |||||||| ||||| || |||||||||||||| || ||||||||||||| || |
-----------------gtaagttccttcttttcttcgcgtctagcctcggagagaagtgaa---ttgcgagagatctctttctcttcgtc------cagGGGCTCAAGACCGCCATCATCGAAGCAGACATTGTTGGAGGGACTTGTGTGAATCGAGGATGCGTTCCTTCCAAAGCGCTCCTGGCCGTGAGTGGACGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagttgagtatcacatttttgtgagagaagttttattaacggtatgattgcagGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
tattaac putative branch site (score: 1)
agaagttttattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattgatagccgttaatgaatattgaatgctgactgcgggatagagtaagttgagtatcacatttttgtgagagaagttttattaacggtatgattgcagGGTTTGAAAACAGCTATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACCGAGGCTGTGTTCCTTCCAAAGCTCTTTTGGCCGTGAGTGGTCGTA
- - - - - - - - - - - - gaatgct
- - - - - - - - - - - - - - - - actgcgg