Sequence
atgc intronic sequence ATGC exonic sequenceCCCTTGTCAATCTTCTTCAAAATGCGGAATTTGACATTAAAAAGGAAGCTGCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAAgtatgttatttcctctgattggttgttctttataatgcacactttttatgaatttgtggtattcactcatcttatgctgtttcaag
Basic information
species | Glycine max |
transcript | GLYMA17G03430.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 5'ss of exon 9
CCCTTGTCAATCTTCTTCAAAATGCGGAATTTGACATTAAAAAGGAAGCTGCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAAgtatgtt-atttcctctg-attggtt-------gttctttataatgcacac-------tttttatgaatttgtggta---ttcactc--atcttatgctgtttcaag-----------
| || || ||||| || |||| || || || || || || ||||||||||| ||||| |||||||||||||| || || || | ||||| || |||||||||||| | | | || | ||| | | | | |||||| | ||| || || || || |||| | || | || ||| |
CTCTGGTGAATCTGCTCCAAACGGCAGAGTTCGATATCAAGAAGGAAGCTGCATGGGCCATCTCAAATGCTACTTCAGGCGGTAGCCATGATCAAATCAAgtatgtttactcaccttgcaccagttctattcagctttatgaaatgcaaatataaccgctttcatagtttcatgttaagcttcatttggatttgatattgtatggtttgttaaaatag
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G088231_T01 (Zea mays), 5'ss of exon 9
CCCTTGTCA-ATCTTCTTCAAAATGCGGAATTTGACATTAAAAAGGAAGCTGCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAAgtatgttatttcctctgattg-gttgttctttataatgcacactttttatgaatttgtggtattcac-tcatctt---atgctgtttcaag---------------------
| |||| | || ||||||| || || ||||| || || ||||| ||||||||||| |||||||||||||| |||||||| ||||||||| ||||||||| || | || || || ||| || || || | ||| ||| | ||| ||| | | ||| |
-CTTTGTTGCAACTGCTTCAAACAGCAGAGTTTGATATCAAGAAGGAGGCTGCTTGGGCCATCTCAAATGCTACCTCTGGTGGTTCTCATGAGCAAATCAAgtatactaccttgacttgctgcactgccttttggcttgtgcagttgtgtgcaatgcaacttatgtatgtcacctttgaacggaatttagaactcatgttttgtcttgcatag
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G091119_T02 (Zea mays), 5'ss of exon 8
CCCTTGTCA-ATCTTCTTCAAAATGCGGAATTTGACATTAAAAAGGAAGCTGCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAAgtatgttatttcctctgattg-gttgttctttataatgcacacttttt----atg-aatttgtggtattcactcatcttatgctgtttcaag----------------------
| |||| | || |||||| || || ||||| || || ||||| ||||||||||| |||||||| ||||| |||||||| |||||||| ||||||||| ||| | || | || || | ||| || || || | ||| || || || || || | ||| |
-CTTTGTTGCAACTGCTTCAAGGAGCAGAGTTTGATATCAAGAAGGAGGCTGCTTGGGCCATCTCAAACGCTACCTCTGGTGGTTCCCATGAGCAAATCAAgtatactatcttgacttactgcactgctttttgccttgtgcagttgtgtgcaatgcaacttatgtatgtctgagttcgaacataatttagaactcatgttgcgtcttgcaatag
upper sequence: GLYMA17G03430.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv05s0077g01430.t01 (Vitis vinifera), 5'ss of exon 9
CCCTTGTCAATCTTCTTCAAAATGCGGAATTTGACATTAAAAAGGAAGCTGCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAAgtatgttatttc---ctctgattggttgttctttat--------aatgcacactttttatgaatttgtggtattcactcatcttatgctgtttcaag-----
|| | || || | ||||||| ||| || ||||| || || || || || || |||||||| || |||||||| |||||||| | |||||| || |||||||||||||| | ||| ||| | |||| || | | ||||| | | | | || | | ||||
CCTTGGTTCATTTGCTTCAAACTGCCGAGTTTGATATAAAGAAAGAGGCAGCATGGGCAATATCGAATGCTACTTCTGGTGGCACTCATGAACAAATCAAgtatgttatcttgattcctgtgaagttccttcttatgtttggccaaaaccctcttttaacagacatagtattttggattgaccacctttgttggtgatatagMapped 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|19345923|gb|BM890803.1|BM890803EST: GCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAA GTACTTGGTGAGTCAGGGTTGCATAAAGCCTCTTTGTGATCTTCTTGTTTG
genomic: GCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAAgtatgttatt ... ctgtttcaagGTACTTGGTGAGTCAGGGTTGCATAAAGCCTCTTTGTGATCTTCTTGTTTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCTTGTCAATCTTCTTCAAAATGCGGAATTTGACATTAAAAAGGAAGCTGCTTGGGCAATCTCAAATGCTACATCTGGTGGAATTCATGAGCAGATCAAgtatgttatttcctctgattggttgttctttataatgcacactttttatgaatttgtggtattcactcatcttatgctgtttcaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA