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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacaaatatatcttaatgccaatttgctgatttgattttgaaagaatattgccatcatacataattcttaattttttttttttcttttttactttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAGTGTAGAGATTCTATTTCAAGCAAAGGCAACAGTGGAAAAGTGATTATCA

Basic information

species Glycine max
transcript GLYMA20G35630.1
intron # 1
splice site 3'
intron type U2

Mapped 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|4405700|gb|AI507849.1|AI507849
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|209697276|gb|BW655541.1|BW655541
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGAC
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGAC
EST: gi|23056562|gb|BU577747.1|BU577747
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|38191583|gb|CF920789.1|CF920789
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|57576025|gb|CX548996.1|CX548996
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|58024625|gb|CX711366.1|CX711366
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|6746638|gb|AW317156.1|AW317156
EST:     GTGGTAACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|38191577|gb|CF920783.1|CF920783
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|38192131|gb|CF921337.1|CF921337
EST:     ACATGTTCAAATCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACGTAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: ACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|14009223|gb|BG725827.1|BG725827
EST:     GTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|6848134|gb|AW350424.1|AW350424
EST:     GTGGTGACATGTTCAACNCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|308098497|gb|HO760238.1|HO760238
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|38192011|gb|CF921217.1|CF921217
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|38192141|gb|CF921347.1|CF921347
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|254320809|gb|GR827258.1|GR827258
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|14126498|gb|BG790936.1|BG790936
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|38192311|gb|CF921517.1|CF921517
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
EST: gi|38191902|gb|CF921108.1|CF921108
EST:     GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAG                         TGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG
genomic: GTGGTGACATGTTCAACTCTATCCCTCAAGCTGATGCAGTGCTACTAAAGgtacaaatat ... ttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgccatcatacataattcttaattttttttttttcttttttactttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAGTGTAGAGATTCTATTTCAAGCAAAGGCAACAGTGGAAAAGTGATTATCA
                 tcttaat  putative branch site (score: 3)
                ttcttaattttttttt  CT-rich tract
        atacataattcttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacaaatatatcttaatgccaatttgctgatttgattttgaaagaatattgccatcatacataattcttaattttttttttttcttttttactttctttgcagTGGGTTTTACATAATTGGACCGACGAAAATTGCATAAAGATCCTGCAAAAGTGTAGAGATTCTATTTCAAGCAAAGGCAACAGTGGAAAAGTGATTATCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGTGGA