Sequence
atgc intronic sequence ATGC exonic sequence...aaaatgaacaatggaattgtatattttcctgtataatatggttgacaactattgataattccattttagtttgtgattcatttcattgcttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
Basic information
species | Glycine max |
transcript | GLYMA19G31030.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g16290.1 (Oryza sativa), 3'ss of exon 10
aaaatgaacaatggaattgtatattttcctgtataatatggttgacaactattgataa---ttccattttagtttgtgattcatttcattgcttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
| | | | | || | || || | | || | || ||| | || || ||| | || | | || | ||||| |||| ||| |||| || ||||| | || ||||||||||| ||||| || |||||||||||||| ||||||||||||| ||||| |||| | |||
-tcactatctcttcattttcctccttctaggtcttac-tgaatagcagctagatagaagttttgtgccttattctgaaacagaaaatgtttgctatttac-agGTGCTCTGATTCATACTCTGATACGGTGCTAGGATATGCTAACAGTATCCGTACTATTGATGGTGGTACTCATATTGATGGGCTGAAGACTTCATTGACA
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G111014_T01 (Zea mays), 3'ss of exon 10
aaaatgaacaatggaattgtatatt-ttcctgtataatatggttgacaactattga-taattccattttagtttgtgattcatttcattg-cttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
| ||||| || ||| | |||| || | | ||||| || | || ||||| | | || ||| || | |||| | | || |||||| ||| | || || |||||| | || ||||| || || ||||| ||||||||||||||||| ||||||||||||| | | |||||||| | ||
--gttttacaattcg-ttatattctgttccagtgtttattatttgactacgagggaataattttgtgctcccttctgaagcaataaattgtccccatttacagGTCCTCTGATTCCTACTCTGATACAGTGCTAGGATACGCAAACAGTATCCGCACTATTGATGGTGGTACTCATATTGATGGTCTAAAGGCTTCATTGACG
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G04130.1 (Arabidopsis thaliana), 3'ss of exon 10
aaaatgaacaatggaattgtatattttcc---tgtata-atatggttgacaactattgataattccattttagtttgtgattcatttcat-tgcttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
| | ||| || | || | |||| | ||| | || | | |||||| ||| | || | | ||| ||| || || | |||||||| ||||||||||||||| ||||| ||||||||||| ||||| || ||||||||||||||||| || || || || | | |||| ||||| |||||
attctcgaca-tgctgtcgtttgttttacacacaaatacacataatataggactattc-taaatggatctga---tgttattggctttgcacatttttgtaccagGTGCTCAGATGCATATTCAGACACAATGCTGGGATATGCCAATAGCATTCGCACTATTGATGGTGGAACACACATCGAAGGTGTGAAAGCTTCATTAACA
upper sequence: GLYMA19G31030.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0007g05120.t01 (Vitis vinifera), 3'ss of exon 10
aaaatgaacaatggaattgtatattttcctgtataatatggttgacaactattgataattccattttagtttgtgat-tcatttcattgcttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
||| | | | | | | | || | || | | || |||| | ||||| | | | | | ||| || || ||| |||| |||||||||||||||||| || ||||||||||||||||| |||||||| |||||||| || |||||||| |||| ||||||||||||| | |||
tgcatggaaatatttaataca-actatcatactcaaaactgacaaccttccttgactagaccattgaattgaattttcttgttttatgcatttgttattagGTGCTCAGATGCATATTCAGATACTATGCTGGGATATGCTAATAGCATACGCACAATTGATGGGGGTACTCATATCGATGGTATGAAGGCTTCTTTGACAMapped 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|17153837|gb|BM143770.1|BM143770EST: AGTTTTAGAAAAGAAACAGATGGCATCACAGTTGATATAGCTTTTCAATG GTGTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACG
genomic: AGTTTTAGAAAAGAAACAGATGGCATCACAGTTGATATAGCTTTTCAATGgtatgccctc ... tctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caactattgataattccattttagtttgtgattcatttcattgcttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
tattgat putative branch site (score: 3)
tttcattgcttcttt putative PPT
ataattccatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaatgaacaatggaattgtatattttcctgtataatatggttgacaactattgataattccattttagtttgtgattcatttcattgcttctttaccagGTCTGAAGATGCATATTCAGATACAATACTGGGATATGCTAATAGTATACGCACTATTGATGGTGGCACTCATATTGATGCTATGAAGGCTTCTATAACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- aatgaac
- - - - - - - - - - - - - tcctgta
- - - - - - - - - - - - - - - - - - - - - tgacaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtttgtg