Sequence
atgc intronic sequence ATGC exonic sequencegtgagaaccaagtaacaaacaaaatgcataaagtaatttgtcttgctaaaatgtgaacaaaattatatatcaccaaatctcgacatggtgtgcaaaattatatatcaatattcaccattttcgtactttgtttgcagGAGGAATTGTGAACAACACTTTACGTCCTCAAATCCCAACTTGGTGTGATCCTGAGTGGAAATCTCTAATGGAAAGTTGTTGGGCTTCTGATCCTGTAGA
Basic information
species | Glycine max |
transcript | GLYMA17G07320.1 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 13
lower sequence: LOC_Os02g54510.3 (Oryza sativa), 3'ss of exon 8
gtgagaaccaagtaacaaacaaaatgcataaagtaatttgtcttgctaaaatgtgaacaaaattatatatcaccaaatctcgacatggtgtgcaaaattatatatcaatattcaccattttcgtactttgtttgcagGAGGAATTGTGAACAACACTTTACGTCCTCAAATCCCAACTTGGTGTGATCCTGAGTGGAAATCTCTAATGGAAAGTTGTTGGGCTTCTGATCCTGTAGA
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--------------------------gagggactgcttatatatatccagacgctagtgatgctat-tgtaattga---tcaac----tattcttgtttgt-cactaaagtgatcacttatcatattta--ttccagGGGGCATCGTGAACAATTCCCTACGTCCTCAGATCCCCTCATGGTGTGATCCTGAATGGAAATCACTGATGGAAAACTGTTGGGCCAGTGAACCAGCAGA
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G039106_T02 (Zea mays), 3'ss of exon 6
gtgagaaccaagtaacaaacaaaatgcataaagtaatttgtcttgctaaaatgtgaacaaaattatatatcaccaaatctcgacatggtgtgcaaaattatatatcaatattcaccattttcgtactttgtttgcagGAGGAATTGTGAACAACACTTTACGTCCTCAAATCCCAACTTGGTGTGATCCTGAGTGGAAATCTCTAATGGAAAGTTGTTGGGCTTCTGATCCTGTAGA
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----------------------------gattttttgttgagtttttgaatcttagtcataa--atatattgcctaggcttattgt----tattatgtcgcaga--aatgattag-gttgcaatacattttctctagGGGCCATTGTAAACGATTCCTTACGCCCTCAAATCCCTTCATGGTGTGATCCTGAGTGGAAGGGATTGATGGAAAGCTGTTGGTCCAGTGATCCAGCGGA
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G039106_T03 (Zea mays), 3'ss of exon 6
gtgagaaccaagtaacaaacaaaatgcataaagtaatttgtcttgctaaaat-gtgaacaaaattatatatcaccaaatctcgacatggtgtgcaaaattatatatcaatattcaccattttcgtactttgtttgcagGAGGAATTGTGAACAACACTTTACGTCCTCAAATCCCAAC--TTGGTGTGATCCTGAGTGGAAATCTCTAATGGAAAGTTGTTGGGCTTCTGATCCTGTAGA
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---------------------------------cattttctctaggggccattgtaaacgattccttacgccctcaaatcccttcatggtgtg----atcctgagtggaagggattgatggaaagctgttggtccagTGATCCAGCGGAGAGACCGTCCTTCACTGATATATCTCAAAGGTTGAGGAAAATGGCCGCTGCAATGAATGTGAAGTGAAGGTTCGGAAGCCATATTTGT---
upper sequence: GLYMA17G07320.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv11s0052g01480.t01 (Vitis vinifera), 3'ss of exon 7
gtgagaaccaagtaacaaacaaaatgca-taaagtaatttgtcttgctaaaatgtgaacaaaattatatatcaccaaatctcgacatggtgtgcaaaattatatatcaatattcaccattttcgtactttgtttgcagGAGGAATTGTGAACAACACTTTACGTCCTCAAATCCCAACTTGGTGTGATCCTGAGTGGAAATCTCTAATGGAAAGTTGTTGGGCTTCTGATCCTGTAGA
||||| | ||||||| || || | | | ||| | | || || |||||| | | | || | | | | |||| | ||| ||| ||||||||| ||||||||||| || ||||| ||||| |||| ||||| || || || ||||||| | | ||||| ||||| |||||||| ||||| | |||
-------------------caaaacctaataaagtagttg-----gcaatcacggtaacctgggtgt-tagtacacaatctcta------------attcatttgtttgtttctgtttctttcct-cttcttttatagGAGGAATCGTGAACAACACATTGCGTCCACAAATTCCAAGATGGTGCGAACCCGAATGGAAATATTTGATGGAGAGTTGCTGGGCTTCCGATCCAGCAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatggtgtgcaaaattatatatcaatattcaccattttcgtactttgtttgcagGAGGAATTGTGAACAACACTTTACGTCCTCAAATCCCAACTTGGTGTGATCCTGAGTGGAAATCTCTAATGGAAAGTTGTTGGGCTTCTGATCCTGTAGA
ctttgttt CT-rich tract
aaaattatatatcaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagaaccaagtaacaaacaaaatgcataaagtaatttgtcttgctaaaatgtgaacaaaattatatatcaccaaatctcgacatggtgtgcaaaattatatatcaatattcaccattttcgtactttgtttgcagGAGGAATTGTGAACAACACTTTACGTCCTCAAATCCCAACTTGGTGTGATCCTGAGTGGAAATCTCTAATGGAAAGTTGTTGGGCTTCTGATCCTGTAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA